-- dump date 20120504_134130 -- class Genbank::misc_feature -- table misc_feature_note -- id note 361100000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 361100000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 361100000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100000004 Walker A motif; other site 361100000005 ATP binding site [chemical binding]; other site 361100000006 Walker B motif; other site 361100000007 arginine finger; other site 361100000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 361100000009 DnaA box-binding interface [nucleotide binding]; other site 361100000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 361100000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 361100000012 putative DNA binding surface [nucleotide binding]; other site 361100000013 dimer interface [polypeptide binding]; other site 361100000014 beta-clamp/clamp loader binding surface; other site 361100000015 beta-clamp/translesion DNA polymerase binding surface; other site 361100000016 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 361100000017 recombination protein F; Reviewed; Region: recF; PRK00064 361100000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 361100000019 Walker A/P-loop; other site 361100000020 ATP binding site [chemical binding]; other site 361100000021 Q-loop/lid; other site 361100000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100000023 ABC transporter signature motif; other site 361100000024 Walker B; other site 361100000025 D-loop; other site 361100000026 H-loop/switch region; other site 361100000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 361100000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100000029 Mg2+ binding site [ion binding]; other site 361100000030 G-X-G motif; other site 361100000031 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 361100000032 anchoring element; other site 361100000033 dimer interface [polypeptide binding]; other site 361100000034 ATP binding site [chemical binding]; other site 361100000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 361100000036 active site 361100000037 putative metal-binding site [ion binding]; other site 361100000038 DNA gyrase subunit A; Validated; Region: PRK05560 361100000039 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 361100000040 CAP-like domain; other site 361100000041 active site 361100000042 primary dimer interface [polypeptide binding]; other site 361100000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100000049 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000050 YaaC-like Protein; Region: YaaC; pfam14175 361100000051 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 361100000052 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 361100000053 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 361100000054 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 361100000055 active site 361100000056 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100000057 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 361100000058 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 361100000059 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 361100000060 active site 361100000061 multimer interface [polypeptide binding]; other site 361100000062 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 361100000063 predicted active site [active] 361100000064 catalytic triad [active] 361100000065 seryl-tRNA synthetase; Provisional; Region: PRK05431 361100000066 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 361100000067 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 361100000068 dimer interface [polypeptide binding]; other site 361100000069 active site 361100000070 motif 1; other site 361100000071 motif 2; other site 361100000072 motif 3; other site 361100000073 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 361100000074 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100000075 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 361100000076 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 361100000077 Substrate-binding site [chemical binding]; other site 361100000078 Substrate specificity [chemical binding]; other site 361100000079 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 361100000080 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 361100000081 Substrate-binding site [chemical binding]; other site 361100000082 Substrate specificity [chemical binding]; other site 361100000083 Isochorismatase family; Region: Isochorismatase; pfam00857 361100000084 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 361100000085 catalytic triad [active] 361100000086 conserved cis-peptide bond; other site 361100000087 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 361100000088 nucleoside/Zn binding site; other site 361100000089 dimer interface [polypeptide binding]; other site 361100000090 catalytic motif [active] 361100000091 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 361100000092 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100000093 Walker A motif; other site 361100000094 ATP binding site [chemical binding]; other site 361100000095 Walker B motif; other site 361100000096 arginine finger; other site 361100000097 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 361100000098 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 361100000099 recombination protein RecR; Reviewed; Region: recR; PRK00076 361100000100 RecR protein; Region: RecR; pfam02132 361100000101 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 361100000102 putative active site [active] 361100000103 putative metal-binding site [ion binding]; other site 361100000104 tetramer interface [polypeptide binding]; other site 361100000105 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 361100000106 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 361100000107 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000108 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 361100000109 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 361100000110 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100000111 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100000112 catalytic residue [active] 361100000113 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; cl11685 361100000114 thymidylate kinase; Validated; Region: tmk; PRK00698 361100000115 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 361100000116 TMP-binding site; other site 361100000117 ATP-binding site [chemical binding]; other site 361100000118 DNA polymerase III subunit delta'; Validated; Region: PRK08058 361100000119 PSP1 C-terminal conserved region; Region: PSP1; cl00770 361100000120 TSC-22/dip/bun family; Region: TSC22; cl01853 361100000121 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 361100000122 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100000123 S-adenosylmethionine binding site [chemical binding]; other site 361100000124 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 361100000125 GIY-YIG motif/motif A; other site 361100000126 putative active site [active] 361100000127 putative metal binding site [ion binding]; other site 361100000128 Predicted methyltransferases [General function prediction only]; Region: COG0313 361100000129 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 361100000130 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 361100000131 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 361100000132 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 361100000133 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 361100000134 active site 361100000135 KMSKS motif; other site 361100000136 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 361100000137 tRNA binding surface [nucleotide binding]; other site 361100000138 anticodon binding site; other site 361100000139 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 361100000140 dimer interface [polypeptide binding]; other site 361100000141 putative tRNA-binding site [nucleotide binding]; other site 361100000142 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 361100000143 active site 361100000144 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 361100000145 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 361100000146 putative active site [active] 361100000147 putative metal binding site [ion binding]; other site 361100000148 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 361100000149 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100000150 YabG peptidase U57; Region: Peptidase_U57; cl05250 361100000151 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 361100000152 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100000153 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 361100000154 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 361100000155 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 361100000156 pur operon repressor; Provisional; Region: PRK09213 361100000157 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 361100000158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100000159 active site 361100000160 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 361100000161 homotrimer interaction site [polypeptide binding]; other site 361100000162 putative active site [active] 361100000163 SpoVG; Region: SpoVG; cl00915 361100000164 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 361100000165 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 361100000166 Substrate binding site; other site 361100000167 Mg++ binding site; other site 361100000168 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 361100000169 active site 361100000170 substrate binding site [chemical binding]; other site 361100000171 CoA binding site [chemical binding]; other site 361100000172 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 361100000173 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 361100000174 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100000175 active site 361100000176 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 361100000177 putative active site [active] 361100000178 catalytic residue [active] 361100000179 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 361100000180 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 361100000181 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 361100000182 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100000183 ATP binding site [chemical binding]; other site 361100000184 putative Mg++ binding site [ion binding]; other site 361100000185 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100000186 nucleotide binding region [chemical binding]; other site 361100000187 ATP-binding site [chemical binding]; other site 361100000188 TRCF domain; Region: TRCF; cl04088 361100000189 stage V sporulation protein T; Region: spore_V_T; TIGR02851 361100000190 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 361100000191 stage V sporulation protein B; Region: spore_V_B; TIGR02900 361100000192 MatE; Region: MatE; cl10513 361100000193 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 361100000194 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100000195 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100000196 RNA binding surface [nucleotide binding]; other site 361100000197 YabP family; Region: YabP; cl06766 361100000198 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 361100000199 Septum formation initiator; Region: DivIC; cl11433 361100000200 hypothetical protein; Provisional; Region: PRK08582 361100000201 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 361100000202 RNA binding site [nucleotide binding]; other site 361100000203 stage II sporulation protein E; Region: spore_II_E; TIGR02865 361100000204 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100000205 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 361100000206 Ligand Binding Site [chemical binding]; other site 361100000207 TilS substrate binding domain; Region: TilS; pfam09179 361100000208 B3/4 domain; Region: B3_4; cl11458 361100000209 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100000210 active site 361100000211 FtsH Extracellular; Region: FtsH_ext; pfam06480 361100000212 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 361100000213 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100000214 Walker A motif; other site 361100000215 ATP binding site [chemical binding]; other site 361100000216 Walker B motif; other site 361100000217 arginine finger; other site 361100000218 Peptidase family M41; Region: Peptidase_M41; pfam01434 361100000219 Type III pantothenate kinase; Region: Pan_kinase; cl09130 361100000220 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 361100000221 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 361100000222 dimerization interface [polypeptide binding]; other site 361100000223 domain crossover interface; other site 361100000224 redox-dependent activation switch; other site 361100000225 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 361100000226 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 361100000227 dimer interface [polypeptide binding]; other site 361100000228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100000229 catalytic residue [active] 361100000230 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 361100000231 chorismate binding enzyme; Region: Chorismate_bind; cl10555 361100000232 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 361100000233 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 361100000234 glutamine binding [chemical binding]; other site 361100000235 catalytic triad [active] 361100000236 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 361100000237 homodimer interface [polypeptide binding]; other site 361100000238 substrate-cofactor binding pocket; other site 361100000239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100000240 catalytic residue [active] 361100000241 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 361100000242 dihydropteroate synthase; Region: DHPS; TIGR01496 361100000243 substrate binding pocket [chemical binding]; other site 361100000244 dimer interface [polypeptide binding]; other site 361100000245 inhibitor binding site; inhibition site 361100000246 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 361100000247 homooctamer interface [polypeptide binding]; other site 361100000248 active site 361100000249 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 361100000250 catalytic center binding site [active] 361100000251 ATP binding site [chemical binding]; other site 361100000252 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100000253 non-specific DNA binding site [nucleotide binding]; other site 361100000254 salt bridge; other site 361100000255 sequence-specific DNA binding site [nucleotide binding]; other site 361100000256 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 361100000257 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 361100000258 FMN binding site [chemical binding]; other site 361100000259 active site 361100000260 catalytic residues [active] 361100000261 substrate binding site [chemical binding]; other site 361100000262 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 361100000263 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 361100000264 dimer interface [polypeptide binding]; other site 361100000265 putative anticodon binding site; other site 361100000266 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 361100000267 motif 1; other site 361100000268 active site 361100000269 motif 2; other site 361100000270 motif 3; other site 361100000271 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000272 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 361100000273 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 361100000274 UvrB/uvrC motif; Region: UVR; pfam02151 361100000275 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 361100000276 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 361100000277 ADP binding site [chemical binding]; other site 361100000278 phosphagen binding site; other site 361100000279 substrate specificity loop; other site 361100000280 Clp protease ATP binding subunit; Region: clpC; CHL00095 361100000281 Clp amino terminal domain; Region: Clp_N; pfam02861 361100000282 Clp amino terminal domain; Region: Clp_N; pfam02861 361100000283 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100000284 Walker A motif; other site 361100000285 ATP binding site [chemical binding]; other site 361100000286 Walker B motif; other site 361100000287 arginine finger; other site 361100000288 UvrB/uvrC motif; Region: UVR; pfam02151 361100000289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100000290 Walker A motif; other site 361100000291 ATP binding site [chemical binding]; other site 361100000292 Walker B motif; other site 361100000293 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 361100000294 DNA repair protein RadA; Provisional; Region: PRK11823 361100000295 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 361100000296 Walker A motif/ATP binding site; other site 361100000297 ATP binding site [chemical binding]; other site 361100000298 Walker B motif; other site 361100000299 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 361100000300 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 361100000301 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 361100000302 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 361100000303 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 361100000304 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 361100000305 putative active site [active] 361100000306 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 361100000307 substrate binding site; other site 361100000308 dimer interface; other site 361100000309 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 361100000310 homotrimer interaction site [polypeptide binding]; other site 361100000311 zinc binding site [ion binding]; other site 361100000312 CDP-binding sites; other site 361100000313 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 361100000314 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 361100000315 active site 361100000316 HIGH motif; other site 361100000317 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 361100000318 active site 361100000319 KMSKS motif; other site 361100000320 serine O-acetyltransferase; Region: cysE; TIGR01172 361100000321 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 361100000322 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 361100000323 trimer interface [polypeptide binding]; other site 361100000324 active site 361100000325 substrate binding site [chemical binding]; other site 361100000326 CoA binding site [chemical binding]; other site 361100000327 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 361100000328 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 361100000329 active site 361100000330 HIGH motif; other site 361100000331 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 361100000332 KMSKS motif; other site 361100000333 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 361100000334 tRNA binding surface [nucleotide binding]; other site 361100000335 anticodon binding site; other site 361100000336 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cl00258 361100000337 active site 361100000338 metal binding site [ion binding]; metal-binding site 361100000339 dimerization interface [polypeptide binding]; other site 361100000340 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 361100000341 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 361100000342 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 361100000343 YacP-like NYN domain; Region: NYN_YacP; cl01491 361100000344 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 361100000345 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100000346 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100000347 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 361100000348 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 361100000349 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 361100000350 putative homodimer interface [polypeptide binding]; other site 361100000351 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 361100000352 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 361100000353 23S rRNA interface [nucleotide binding]; other site 361100000354 L7/L12 interface [polypeptide binding]; other site 361100000355 putative thiostrepton binding site; other site 361100000356 L25 interface [polypeptide binding]; other site 361100000357 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 361100000358 mRNA/rRNA interface [nucleotide binding]; other site 361100000359 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 361100000360 23S rRNA interface [nucleotide binding]; other site 361100000361 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 361100000362 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 361100000363 core dimer interface [polypeptide binding]; other site 361100000364 peripheral dimer interface [polypeptide binding]; other site 361100000365 L10 interface [polypeptide binding]; other site 361100000366 L11 interface [polypeptide binding]; other site 361100000367 putative EF-Tu interaction site [polypeptide binding]; other site 361100000368 putative EF-G interaction site [polypeptide binding]; other site 361100000369 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100000370 S-adenosylmethionine binding site [chemical binding]; other site 361100000371 RNA polymerase beta subunit; Provisional; Region: rpoB; CHL00207 361100000372 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 361100000373 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 361100000374 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 361100000375 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 361100000376 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 361100000377 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 361100000378 RPB10 interaction site [polypeptide binding]; other site 361100000379 RPB1 interaction site [polypeptide binding]; other site 361100000380 RPB11 interaction site [polypeptide binding]; other site 361100000381 RPB3 interaction site [polypeptide binding]; other site 361100000382 RPB12 interaction site [polypeptide binding]; other site 361100000383 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 361100000384 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 361100000385 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 361100000386 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 361100000387 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 361100000388 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 361100000389 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 361100000390 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 361100000391 G-loop; other site 361100000392 DNA binding site [nucleotide binding] 361100000393 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 361100000394 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 361100000395 S17 interaction site [polypeptide binding]; other site 361100000396 S8 interaction site; other site 361100000397 16S rRNA interaction site [nucleotide binding]; other site 361100000398 streptomycin interaction site [chemical binding]; other site 361100000399 23S rRNA interaction site [nucleotide binding]; other site 361100000400 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 361100000401 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 361100000402 elongation factor G; Reviewed; Region: PRK00007 361100000403 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 361100000404 G1 box; other site 361100000405 putative GEF interaction site [polypeptide binding]; other site 361100000406 GTP/Mg2+ binding site [chemical binding]; other site 361100000407 Switch I region; other site 361100000408 G2 box; other site 361100000409 G3 box; other site 361100000410 Switch II region; other site 361100000411 G4 box; other site 361100000412 G5 box; other site 361100000413 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 361100000414 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 361100000415 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 361100000416 elongation factor Tu; Reviewed; Region: PRK00049 361100000417 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 361100000418 G1 box; other site 361100000419 GEF interaction site [polypeptide binding]; other site 361100000420 GTP/Mg2+ binding site [chemical binding]; other site 361100000421 Switch I region; other site 361100000422 G2 box; other site 361100000423 G3 box; other site 361100000424 Switch II region; other site 361100000425 G4 box; other site 361100000426 G5 box; other site 361100000427 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 361100000428 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 361100000429 Antibiotic Binding Site [chemical binding]; other site 361100000430 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 361100000431 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 361100000432 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 361100000433 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 361100000434 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 361100000435 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 361100000436 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 361100000437 putative translocon binding site; other site 361100000438 protein-rRNA interface [nucleotide binding]; other site 361100000439 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 361100000440 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 361100000441 G-X-X-G motif; other site 361100000442 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 361100000443 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 361100000444 23S rRNA interface [nucleotide binding]; other site 361100000445 5S rRNA interface [nucleotide binding]; other site 361100000446 putative antibiotic binding site [chemical binding]; other site 361100000447 L25 interface [polypeptide binding]; other site 361100000448 L27 interface [polypeptide binding]; other site 361100000449 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 361100000450 23S rRNA interface [nucleotide binding]; other site 361100000451 putative translocon interaction site; other site 361100000452 signal recognition particle (SRP54) interaction site; other site 361100000453 L23 interface [polypeptide binding]; other site 361100000454 trigger factor interaction site; other site 361100000455 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 361100000456 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 361100000457 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 361100000458 KOW motif; Region: KOW; cl00354 361100000459 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 361100000460 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 361100000461 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 361100000462 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 361100000463 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 361100000464 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 361100000465 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 361100000466 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 361100000467 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 361100000468 5S rRNA interface [nucleotide binding]; other site 361100000469 L27 interface [polypeptide binding]; other site 361100000470 23S rRNA interface [nucleotide binding]; other site 361100000471 L5 interface [polypeptide binding]; other site 361100000472 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 361100000473 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 361100000474 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 361100000475 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 361100000476 23S rRNA binding site [nucleotide binding]; other site 361100000477 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 361100000478 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12907 361100000479 SecY translocase; Region: SecY; pfam00344 361100000480 adenylate kinase; Reviewed; Region: adk; PRK00279 361100000481 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 361100000482 AMP-binding site [chemical binding]; other site 361100000483 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 361100000484 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 361100000485 active site 361100000486 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 361100000487 rRNA binding site [nucleotide binding]; other site 361100000488 predicted 30S ribosome binding site; other site 361100000489 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 361100000490 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 361100000491 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 361100000492 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 361100000493 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 361100000494 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 361100000495 alphaNTD - beta interaction site [polypeptide binding]; other site 361100000496 alphaNTD homodimer interface [polypeptide binding]; other site 361100000497 alphaNTD - beta' interaction site [polypeptide binding]; other site 361100000498 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 361100000499 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 361100000500 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 361100000501 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 361100000502 Walker A/P-loop; other site 361100000503 ATP binding site [chemical binding]; other site 361100000504 Q-loop/lid; other site 361100000505 ABC transporter signature motif; other site 361100000506 Walker B; other site 361100000507 D-loop; other site 361100000508 H-loop/switch region; other site 361100000509 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 361100000510 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 361100000511 Walker A/P-loop; other site 361100000512 ATP binding site [chemical binding]; other site 361100000513 Q-loop/lid; other site 361100000514 ABC transporter signature motif; other site 361100000515 Walker B; other site 361100000516 D-loop; other site 361100000517 H-loop/switch region; other site 361100000518 Cobalt transport protein; Region: CbiQ; cl00463 361100000519 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 361100000520 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 361100000521 dimerization interface 3.5A [polypeptide binding]; other site 361100000522 active site 361100000523 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 361100000524 23S rRNA interface [nucleotide binding]; other site 361100000525 L3 interface [polypeptide binding]; other site 361100000526 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 361100000527 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 361100000528 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 361100000529 active site 361100000530 metal binding site [ion binding]; metal-binding site 361100000531 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 361100000532 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 361100000533 Putative catalytic NodB homology domain of Bacillus subtilis putative polysaccharide deacetylase PdaB, and its bacterial homologs; Region: CE4_BsPdaB_like; cd10949 361100000534 NodB motif; other site 361100000535 putative active site [active] 361100000536 putative catalytic site [active] 361100000537 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000538 Glycerate kinase family; Region: Gly_kinase; cl00841 361100000539 Arginase family; Region: Arginase; cl00306 361100000540 Uncharacterized conserved protein [Function unknown]; Region: COG1624 361100000541 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 361100000542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 361100000543 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 361100000544 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 361100000545 active site 361100000546 substrate binding site [chemical binding]; other site 361100000547 metal binding site [ion binding]; metal-binding site 361100000548 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 361100000549 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 361100000550 glutaminase active site [active] 361100000551 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 361100000552 dimer interface [polypeptide binding]; other site 361100000553 active site 361100000554 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 361100000555 dimer interface [polypeptide binding]; other site 361100000556 active site 361100000557 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 361100000558 Transcriptional regulators [Transcription]; Region: GntR; COG1802 361100000559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100000560 DNA-binding site [nucleotide binding]; DNA binding site 361100000561 FCD domain; Region: FCD; cl11656 361100000562 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 361100000563 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 361100000564 N- and C-terminal domain interface [polypeptide binding]; other site 361100000565 putative active site [active] 361100000566 catalytic site [active] 361100000567 metal binding site [ion binding]; metal-binding site 361100000568 carbohydrate binding site [chemical binding]; other site 361100000569 ATP binding site [chemical binding]; other site 361100000570 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 361100000571 gluconate transporter; Region: gntP; TIGR00791 361100000572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100000573 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 361100000574 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 361100000575 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 361100000576 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 361100000577 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 361100000578 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 361100000579 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 361100000580 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100000581 DNA binding residues [nucleotide binding] 361100000582 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 361100000583 classical (c) SDRs; Region: SDR_c; cd05233 361100000584 NAD(P) binding site [chemical binding]; other site 361100000585 active site 361100000586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000587 ABC-ATPase subunit interface; other site 361100000588 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 361100000589 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 361100000590 Walker A/P-loop; other site 361100000591 ATP binding site [chemical binding]; other site 361100000592 Q-loop/lid; other site 361100000593 ABC transporter signature motif; other site 361100000594 Walker B; other site 361100000595 D-loop; other site 361100000596 H-loop/switch region; other site 361100000597 NIL domain; Region: NIL; cl09633 361100000598 NMT1-like family; Region: NMT1_2; cl15260 361100000599 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100000600 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 361100000601 putative NAD(P) binding site [chemical binding]; other site 361100000602 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 361100000603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100000604 putative substrate translocation pore; other site 361100000605 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 361100000606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100000607 putative substrate translocation pore; other site 361100000608 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 361100000609 Protein of unknown function (DUF3951); Region: DUF3951; pfam13131 361100000610 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 361100000611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000612 dimer interface [polypeptide binding]; other site 361100000613 conserved gate region; other site 361100000614 putative PBP binding loops; other site 361100000615 ABC-ATPase subunit interface; other site 361100000616 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100000617 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 361100000618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000619 putative PBP binding loops; other site 361100000620 dimer interface [polypeptide binding]; other site 361100000621 ABC-ATPase subunit interface; other site 361100000622 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 361100000623 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100000624 Walker A/P-loop; other site 361100000625 ATP binding site [chemical binding]; other site 361100000626 Q-loop/lid; other site 361100000627 ABC transporter signature motif; other site 361100000628 Walker B; other site 361100000629 D-loop; other site 361100000630 H-loop/switch region; other site 361100000631 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100000632 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 361100000633 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100000634 Walker A/P-loop; other site 361100000635 ATP binding site [chemical binding]; other site 361100000636 Q-loop/lid; other site 361100000637 ABC transporter signature motif; other site 361100000638 Walker B; other site 361100000639 D-loop; other site 361100000640 H-loop/switch region; other site 361100000641 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100000642 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100000643 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100000644 peptide binding site [polypeptide binding]; other site 361100000645 YusW-like protein; Region: YusW; pfam14039 361100000646 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 361100000647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100000648 Helix-turn-helix domains; Region: HTH; cl00088 361100000649 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 361100000650 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 361100000651 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100000652 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100000653 peptide binding site [polypeptide binding]; other site 361100000654 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100000655 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100000656 peptide binding site [polypeptide binding]; other site 361100000657 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100000658 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 361100000659 active site 361100000660 catalytic tetrad [active] 361100000661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100000662 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 361100000663 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 361100000664 Sugar transport protein; Region: Sugar_transport; pfam06800 361100000665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000666 putative PBP binding loops; other site 361100000667 dimer interface [polypeptide binding]; other site 361100000668 ABC-ATPase subunit interface; other site 361100000669 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 361100000670 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100000671 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100000672 Protein of unknown function (DUF3948); Region: DUF3948; pfam13134 361100000673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100000674 Helix-turn-helix domains; Region: HTH; cl00088 361100000675 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 361100000676 putative dimerization interface [polypeptide binding]; other site 361100000677 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 361100000678 YrzO-like protein; Region: YrzO; pfam14142 361100000679 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 361100000680 putative acyl-acceptor binding pocket; other site 361100000681 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100000682 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100000683 DNA binding site [nucleotide binding] 361100000684 domain linker motif; other site 361100000685 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 361100000686 putative ligand binding site [chemical binding]; other site 361100000687 putative dimerization interface [polypeptide binding]; other site 361100000688 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100000689 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100000690 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100000691 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100000692 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100000693 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 361100000694 active site 361100000695 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 361100000696 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 361100000697 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 361100000698 N-acetyl-D-glucosamine binding site [chemical binding]; other site 361100000699 catalytic residue [active] 361100000700 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 361100000701 nucleotide binding site/active site [active] 361100000702 HIT family signature motif; other site 361100000703 catalytic residue [active] 361100000704 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100000705 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000706 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000707 ABC transporter; Region: ABC_tran_2; pfam12848 361100000708 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000709 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 361100000710 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 361100000711 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 361100000712 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 361100000713 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 361100000714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000715 dimer interface [polypeptide binding]; other site 361100000716 conserved gate region; other site 361100000717 putative PBP binding loops; other site 361100000718 ABC-ATPase subunit interface; other site 361100000719 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100000720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100000721 dimer interface [polypeptide binding]; other site 361100000722 conserved gate region; other site 361100000723 putative PBP binding loops; other site 361100000724 ABC-ATPase subunit interface; other site 361100000725 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 361100000726 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100000727 Walker A/P-loop; other site 361100000728 ATP binding site [chemical binding]; other site 361100000729 Q-loop/lid; other site 361100000730 ABC transporter signature motif; other site 361100000731 Walker B; other site 361100000732 D-loop; other site 361100000733 H-loop/switch region; other site 361100000734 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100000735 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 361100000736 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100000737 Walker A/P-loop; other site 361100000738 ATP binding site [chemical binding]; other site 361100000739 Q-loop/lid; other site 361100000740 ABC transporter signature motif; other site 361100000741 Walker B; other site 361100000742 D-loop; other site 361100000743 H-loop/switch region; other site 361100000744 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100000745 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 361100000746 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100000747 active site 361100000748 motif I; other site 361100000749 motif II; other site 361100000750 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100000751 motif II; other site 361100000752 Protein of unknown function (DUF3948); Region: DUF3948; pfam13134 361100000753 Protein of unknown function (DUF3948); Region: DUF3948; pfam13134 361100000754 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 361100000755 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 361100000756 dimer interface [polypeptide binding]; other site 361100000757 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 361100000758 active site 361100000759 Fe binding site [ion binding]; other site 361100000760 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 361100000761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 361100000762 Cupin domain; Region: Cupin_2; cl09118 361100000763 amino acid transporter; Region: 2A0306; TIGR00909 361100000764 Spore germination protein; Region: Spore_permease; cl15802 361100000765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100000766 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100000767 putative substrate translocation pore; other site 361100000768 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 361100000769 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 361100000770 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 361100000771 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100000772 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100000773 helicase 45; Provisional; Region: PTZ00424 361100000774 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 361100000775 ATP binding site [chemical binding]; other site 361100000776 Mg++ binding site [ion binding]; other site 361100000777 motif III; other site 361100000778 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100000779 nucleotide binding region [chemical binding]; other site 361100000780 ATP-binding site [chemical binding]; other site 361100000781 UV-endonuclease UvdE; Region: UvdE; cl10036 361100000782 Rhomboid family; Region: Rhomboid; cl11446 361100000783 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 361100000784 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 361100000785 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 361100000786 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 361100000787 alanine racemase; Reviewed; Region: alr; PRK00053 361100000788 active site 361100000789 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 361100000790 dimer interface [polypeptide binding]; other site 361100000791 substrate binding site [chemical binding]; other site 361100000792 catalytic residues [active] 361100000793 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 361100000794 PemK-like protein; Region: PemK; cl00995 361100000795 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 361100000796 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 361100000797 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 361100000798 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 361100000799 RNA binding site [nucleotide binding]; other site 361100000800 SprT homologues; Region: SprT; cl01182 361100000801 SprT-like family; Region: SprT-like; pfam10263 361100000802 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000803 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 361100000804 Glycoprotease family; Region: Peptidase_M22; pfam00814 361100000805 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 361100000806 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 361100000807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100000808 Coenzyme A binding pocket [chemical binding]; other site 361100000809 UGMP family protein; Validated; Region: PRK09604 361100000810 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 361100000811 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100000812 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000813 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000814 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100000815 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 361100000816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100000817 CAAX protease self-immunity; Region: Abi; cl00558 361100000818 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 361100000819 oligomerisation interface [polypeptide binding]; other site 361100000820 mobile loop; other site 361100000821 roof hairpin; other site 361100000822 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 361100000823 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 361100000824 ring oligomerisation interface [polypeptide binding]; other site 361100000825 ATP/Mg binding site [chemical binding]; other site 361100000826 stacking interactions; other site 361100000827 hinge regions; other site 361100000828 GMP synthase; Reviewed; Region: guaA; PRK00074 361100000829 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 361100000830 AMP/PPi binding site [chemical binding]; other site 361100000831 candidate oxyanion hole; other site 361100000832 catalytic triad [active] 361100000833 potential glutamine specificity residues [chemical binding]; other site 361100000834 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 361100000835 ATP Binding subdomain [chemical binding]; other site 361100000836 Ligand Binding sites [chemical binding]; other site 361100000837 Dimerization subdomain; other site 361100000838 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 361100000839 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100000840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100000841 active site 361100000842 phosphorylation site [posttranslational modification] 361100000843 intermolecular recognition site; other site 361100000844 dimerization interface [polypeptide binding]; other site 361100000845 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100000846 DNA binding site [nucleotide binding] 361100000847 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100000848 dimerization interface [polypeptide binding]; other site 361100000849 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100000850 dimer interface [polypeptide binding]; other site 361100000851 phosphorylation site [posttranslational modification] 361100000852 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100000853 ATP binding site [chemical binding]; other site 361100000854 Mg2+ binding site [ion binding]; other site 361100000855 G-X-G motif; other site 361100000856 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000857 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 361100000858 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 361100000859 catalytic residues [active] 361100000860 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000861 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 361100000862 putative ligand binding site [chemical binding]; other site 361100000863 putative catalytic site [active] 361100000864 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100000865 S-adenosylmethionine binding site [chemical binding]; other site 361100000866 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100000867 S-adenosylmethionine binding site [chemical binding]; other site 361100000868 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 361100000869 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 361100000870 UDP-glucose 4-epimerase (G4E), subgroup 5, extended (e) SDRs; Region: UDP_G4E_5_SDR_e; cd05264 361100000871 putative NAD(P) binding site [chemical binding]; other site 361100000872 active site 361100000873 putative substrate binding site [chemical binding]; other site 361100000874 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100000875 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 361100000876 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 361100000877 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100000878 active site 361100000879 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000880 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100000881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100000882 DNA-binding site [nucleotide binding]; DNA binding site 361100000883 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100000884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100000885 homodimer interface [polypeptide binding]; other site 361100000886 catalytic residue [active] 361100000887 Proline dehydrogenase; Region: Pro_dh; cl03282 361100000888 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000889 EamA-like transporter family; Region: EamA; cl01037 361100000890 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100000891 putative transposase OrfB; Reviewed; Region: PHA02517 361100000892 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 361100000893 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100000894 AIR carboxylase; Region: AIRC; cl00310 361100000895 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 361100000896 adenylosuccinate lyase; Provisional; Region: PRK07492 361100000897 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 361100000898 tetramer interface [polypeptide binding]; other site 361100000899 active site 361100000900 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 361100000901 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 361100000902 ATP binding site [chemical binding]; other site 361100000903 active site 361100000904 substrate binding site [chemical binding]; other site 361100000905 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 361100000906 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 361100000907 putative active site [active] 361100000908 catalytic triad [active] 361100000909 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 361100000910 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 361100000911 dimerization interface [polypeptide binding]; other site 361100000912 ATP binding site [chemical binding]; other site 361100000913 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 361100000914 dimerization interface [polypeptide binding]; other site 361100000915 ATP binding site [chemical binding]; other site 361100000916 amidophosphoribosyltransferase; Provisional; Region: PRK06781 361100000917 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 361100000918 active site 361100000919 tetramer interface [polypeptide binding]; other site 361100000920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100000921 active site 361100000922 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 361100000923 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 361100000924 dimerization interface [polypeptide binding]; other site 361100000925 putative ATP binding site [chemical binding]; other site 361100000926 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 361100000927 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 361100000928 active site 361100000929 substrate binding site [chemical binding]; other site 361100000930 cosubstrate binding site; other site 361100000931 catalytic site [active] 361100000932 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 361100000933 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 361100000934 purine monophosphate binding site [chemical binding]; other site 361100000935 dimer interface [polypeptide binding]; other site 361100000936 putative catalytic residues [active] 361100000937 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 361100000938 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 361100000939 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 361100000940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 361100000941 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 361100000942 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 361100000943 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 361100000944 putative active site [active] 361100000945 dimer interface [polypeptide binding]; other site 361100000946 substrate binding site [chemical binding]; other site 361100000947 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 361100000948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100000949 Family description; Region: UvrD_C_2; cl15862 361100000950 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 361100000951 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 361100000952 nucleotide binding pocket [chemical binding]; other site 361100000953 K-X-D-G motif; other site 361100000954 catalytic site [active] 361100000955 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 361100000956 Dimer interface [polypeptide binding]; other site 361100000957 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 361100000958 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 361100000959 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 361100000960 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 361100000961 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 361100000962 Glutamate binding site [chemical binding]; other site 361100000963 homodimer interface [polypeptide binding]; other site 361100000964 NAD binding site [chemical binding]; other site 361100000965 catalytic residues [active] 361100000966 Isochorismatase family; Region: Isochorismatase; pfam00857 361100000967 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100000968 catalytic triad [active] 361100000969 conserved cis-peptide bond; other site 361100000970 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 361100000971 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 361100000972 Walker A/P-loop; other site 361100000973 ATP binding site [chemical binding]; other site 361100000974 Q-loop/lid; other site 361100000975 ABC transporter signature motif; other site 361100000976 Walker B; other site 361100000977 D-loop; other site 361100000978 H-loop/switch region; other site 361100000979 NIL domain; Region: NIL; cl09633 361100000980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100000981 NMT1-like family; Region: NMT1_2; cl15260 361100000982 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 361100000983 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 361100000984 P loop; other site 361100000985 Nucleotide binding site [chemical binding]; other site 361100000986 DTAP/Switch II; other site 361100000987 Switch I; other site 361100000988 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 361100000989 putative dimer interface [polypeptide binding]; other site 361100000990 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100000991 Helix-turn-helix domains; Region: HTH; cl00088 361100000992 Helix-turn-helix domains; Region: HTH; cl00088 361100000993 yiaA/B two helix domain; Region: YiaAB; cl01759 361100000994 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 361100000995 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 361100000996 Amidase; Region: Amidase; cl11426 361100000997 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 361100000998 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 361100000999 GatB domain; Region: GatB_Yqey; cl11497 361100001000 putative lipid kinase; Reviewed; Region: PRK13337 361100001001 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 361100001002 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 361100001003 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100001004 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100001005 S-adenosylmethionine binding site [chemical binding]; other site 361100001006 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 361100001007 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100001008 motif II; other site 361100001009 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 361100001010 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100001011 inhibitor-cofactor binding pocket; inhibition site 361100001012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100001013 catalytic residue [active] 361100001014 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100001015 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 361100001016 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100001017 Walker A motif; other site 361100001018 ATP binding site [chemical binding]; other site 361100001019 Walker B motif; other site 361100001020 arginine finger; other site 361100001021 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 361100001022 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 361100001023 tetramerization interface [polypeptide binding]; other site 361100001024 NAD(P) binding site [chemical binding]; other site 361100001025 catalytic residues [active] 361100001026 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100001027 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 361100001028 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 361100001029 putative active site [active] 361100001030 putative metal binding site [ion binding]; other site 361100001031 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 361100001032 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100001033 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100001034 TRAM domain; Region: TRAM; cl01282 361100001035 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 361100001036 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100001037 S-adenosylmethionine binding site [chemical binding]; other site 361100001038 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 361100001039 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 361100001040 FMN binding site [chemical binding]; other site 361100001041 active site 361100001042 catalytic residues [active] 361100001043 substrate binding site [chemical binding]; other site 361100001044 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 361100001045 GAF domain; Region: GAF; cl15785 361100001046 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 361100001047 GAF domain; Region: GAF; cl15785 361100001048 PAS domain S-box; Region: sensory_box; TIGR00229 361100001049 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100001050 putative active site [active] 361100001051 heme pocket [chemical binding]; other site 361100001052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100001053 metal binding site [ion binding]; metal-binding site 361100001054 active site 361100001055 I-site; other site 361100001056 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100001057 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 361100001058 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 361100001059 TPP binding site [chemical binding]; other site 361100001060 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 361100001061 TPP-binding site [chemical binding]; other site 361100001062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 361100001063 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 361100001064 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 361100001065 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100001066 FeS/SAM binding site; other site 361100001067 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 361100001068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001069 FAD binding domain; Region: FAD_binding_4; pfam01565 361100001070 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 361100001071 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 361100001072 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 361100001073 metal binding site [ion binding]; metal-binding site 361100001074 dimer interface [polypeptide binding]; other site 361100001075 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 361100001076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100001077 transposase/IS protein; Provisional; Region: PRK09183 361100001078 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100001079 Walker A motif; other site 361100001080 ATP binding site [chemical binding]; other site 361100001081 Walker B motif; other site 361100001082 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100001083 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100001084 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100001085 seryl-tRNA synthetase; Provisional; Region: PRK05431 361100001086 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 361100001087 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 361100001088 dimer interface [polypeptide binding]; other site 361100001089 active site 361100001090 motif 1; other site 361100001091 motif 2; other site 361100001092 motif 3; other site 361100001093 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 361100001094 catalytic triad [active] 361100001095 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 361100001096 AMP-binding enzyme; Region: AMP-binding; cl15778 361100001097 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100001098 peptide synthase; Validated; Region: PRK05691 361100001099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001100 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100001101 putative substrate translocation pore; other site 361100001102 putative transposase OrfB; Reviewed; Region: PHA02517 361100001103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 361100001104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 361100001105 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 361100001106 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 361100001107 Protein of unknown function DUF45; Region: DUF45; cl00636 361100001108 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 361100001109 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 361100001110 active site 361100001111 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 361100001112 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 361100001113 amidohydrolase; Region: amidohydrolases; TIGR01891 361100001114 metal binding site [ion binding]; metal-binding site 361100001115 putative dimer interface [polypeptide binding]; other site 361100001116 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100001117 S-adenosylmethionine binding site [chemical binding]; other site 361100001118 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 361100001119 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 361100001120 catalytic residue [active] 361100001121 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 361100001122 catalytic residues [active] 361100001123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100001124 peroxiredoxin; Region: AhpC; TIGR03137 361100001125 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 361100001126 dimer interface [polypeptide binding]; other site 361100001127 decamer (pentamer of dimers) interface [polypeptide binding]; other site 361100001128 catalytic triad [active] 361100001129 peroxidatic and resolving cysteines [active] 361100001130 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100001131 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 361100001132 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 361100001133 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 361100001134 intersubunit interface [polypeptide binding]; other site 361100001135 active site 361100001136 Zn2+ binding site [ion binding]; other site 361100001137 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100001138 ABC-ATPase subunit interface; other site 361100001139 dimer interface [polypeptide binding]; other site 361100001140 putative PBP binding regions; other site 361100001141 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100001142 ABC-ATPase subunit interface; other site 361100001143 dimer interface [polypeptide binding]; other site 361100001144 putative PBP binding regions; other site 361100001145 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100001146 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 361100001147 putative ligand binding residues [chemical binding]; other site 361100001148 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 361100001149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001150 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100001151 Putative cyclase; Region: Cyclase; cl00814 361100001152 hypothetical protein; Provisional; Region: PRK06851 361100001153 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100001154 Walker A motif; other site 361100001155 ATP binding site [chemical binding]; other site 361100001156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100001157 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 361100001158 benzoate transport; Region: 2A0115; TIGR00895 361100001159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001160 putative substrate translocation pore; other site 361100001161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001162 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 361100001163 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 361100001164 [2Fe-2S] cluster binding site [ion binding]; other site 361100001165 Fatty acid desaturase; Region: FA_desaturase; pfam00487 361100001166 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 361100001167 putative di-iron ligands [ion binding]; other site 361100001168 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 361100001169 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 361100001170 DXD motif; other site 361100001171 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 361100001172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001173 active site 361100001174 phosphorylation site [posttranslational modification] 361100001175 intermolecular recognition site; other site 361100001176 dimerization interface [polypeptide binding]; other site 361100001177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001178 dimer interface [polypeptide binding]; other site 361100001179 conserved gate region; other site 361100001180 putative PBP binding loops; other site 361100001181 ABC-ATPase subunit interface; other site 361100001182 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 361100001183 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100001184 substrate binding pocket [chemical binding]; other site 361100001185 membrane-bound complex binding site; other site 361100001186 hinge residues; other site 361100001187 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 361100001188 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 361100001189 Walker A/P-loop; other site 361100001190 ATP binding site [chemical binding]; other site 361100001191 Q-loop/lid; other site 361100001192 ABC transporter signature motif; other site 361100001193 Walker B; other site 361100001194 D-loop; other site 361100001195 H-loop/switch region; other site 361100001196 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 361100001197 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100001198 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 361100001199 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 361100001200 Ca binding site [ion binding]; other site 361100001201 active site 361100001202 catalytic site [active] 361100001203 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100001204 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 361100001205 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 361100001206 active site turn [active] 361100001207 phosphorylation site [posttranslational modification] 361100001208 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 361100001209 putative catalytic site [active] 361100001210 putative metal binding site [ion binding]; other site 361100001211 putative phosphate binding site [ion binding]; other site 361100001212 Predicted membrane protein [Function unknown]; Region: COG1511 361100001213 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 361100001214 Predicted membrane protein [Function unknown]; Region: COG1511 361100001215 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 361100001216 dinuclear metal binding motif [ion binding]; other site 361100001217 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100001218 DNA topoisomerase III; Provisional; Region: PRK07726 361100001219 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 361100001220 active site 361100001221 putative interdomain interaction site [polypeptide binding]; other site 361100001222 putative metal-binding site [ion binding]; other site 361100001223 putative nucleotide binding site [chemical binding]; other site 361100001224 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 361100001225 domain I; other site 361100001226 DNA binding groove [nucleotide binding] 361100001227 phosphate binding site [ion binding]; other site 361100001228 domain II; other site 361100001229 domain III; other site 361100001230 nucleotide binding site [chemical binding]; other site 361100001231 catalytic site [active] 361100001232 domain IV; other site 361100001233 Helix-turn-helix domains; Region: HTH; cl00088 361100001234 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 361100001235 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100001236 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100001237 Walker A/P-loop; other site 361100001238 ATP binding site [chemical binding]; other site 361100001239 Q-loop/lid; other site 361100001240 ABC transporter signature motif; other site 361100001241 Walker B; other site 361100001242 D-loop; other site 361100001243 H-loop/switch region; other site 361100001244 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 361100001245 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100001246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100001247 Walker A/P-loop; other site 361100001248 ATP binding site [chemical binding]; other site 361100001249 Q-loop/lid; other site 361100001250 ABC transporter signature motif; other site 361100001251 Walker B; other site 361100001252 D-loop; other site 361100001253 H-loop/switch region; other site 361100001254 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 361100001255 active site 361100001256 putative metal-binding site [ion binding]; other site 361100001257 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 361100001258 substrate binding site [chemical binding]; other site 361100001259 multimerization interface [polypeptide binding]; other site 361100001260 ATP binding site [chemical binding]; other site 361100001261 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 361100001262 thiamine phosphate binding site [chemical binding]; other site 361100001263 active site 361100001264 pyrophosphate binding site [ion binding]; other site 361100001265 Predicted esterase [General function prediction only]; Region: COG0400 361100001266 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 361100001267 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 361100001268 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 361100001269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100001270 dimer interface [polypeptide binding]; other site 361100001271 putative CheW interface [polypeptide binding]; other site 361100001272 Domain of unknown function DUF77; Region: DUF77; cl00307 361100001273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001274 dimer interface [polypeptide binding]; other site 361100001275 conserved gate region; other site 361100001276 putative PBP binding loops; other site 361100001277 ABC-ATPase subunit interface; other site 361100001278 NMT1-like family; Region: NMT1_2; cl15260 361100001279 NMT1/THI5 like; Region: NMT1; pfam09084 361100001280 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 361100001281 Q-loop/lid; other site 361100001282 ABC transporter signature motif; other site 361100001283 Walker B; other site 361100001284 D-loop; other site 361100001285 H-loop/switch region; other site 361100001286 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100001287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100001288 Walker A/P-loop; other site 361100001289 ATP binding site [chemical binding]; other site 361100001290 Q-loop/lid; other site 361100001291 ABC transporter signature motif; other site 361100001292 Walker B; other site 361100001293 D-loop; other site 361100001294 H-loop/switch region; other site 361100001295 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100001296 Glyco_18 domain; Region: Glyco_18; smart00636 361100001297 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 361100001298 active site 361100001299 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 361100001300 Interdomain contacts; other site 361100001301 Cytokine receptor motif; other site 361100001302 Cellulose binding domain; Region: CBM_2; cl02709 361100001303 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 361100001304 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100001305 catalytic residues [active] 361100001306 Helix-turn-helix domains; Region: HTH; cl00088 361100001307 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 361100001308 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100001309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001310 putative substrate translocation pore; other site 361100001311 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100001312 non-specific DNA binding site [nucleotide binding]; other site 361100001313 salt bridge; other site 361100001314 sequence-specific DNA binding site [nucleotide binding]; other site 361100001315 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 361100001316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001317 putative substrate translocation pore; other site 361100001318 Sulfatase; Region: Sulfatase; cl10460 361100001319 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 361100001320 YesK-like protein; Region: YesK; pfam14150 361100001321 prolyl-tRNA synthetase; Provisional; Region: PRK08661 361100001322 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 361100001323 dimer interface [polypeptide binding]; other site 361100001324 motif 1; other site 361100001325 active site 361100001326 motif 2; other site 361100001327 motif 3; other site 361100001328 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 361100001329 anticodon binding site; other site 361100001330 zinc-binding site [ion binding]; other site 361100001331 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 361100001332 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100001333 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 361100001334 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 361100001335 putative metal binding site [ion binding]; other site 361100001336 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 361100001337 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 361100001338 putative metal binding site [ion binding]; other site 361100001339 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 361100001340 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 361100001341 putative metal binding site [ion binding]; other site 361100001342 Integral membrane protein TerC family; Region: TerC; cl10468 361100001343 Domain of unknown function (DUF4356); Region: DUF4356; pfam14266 361100001344 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 361100001345 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 361100001346 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 361100001347 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100001348 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 361100001349 Low molecular weight phosphatase family; Region: LMWPc; cd00115 361100001350 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 361100001351 active site 361100001352 Domain of unknown function (DUF4075); Region: DUF4075; pfam13294 361100001353 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 361100001354 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 361100001355 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 361100001356 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100001357 EamA-like transporter family; Region: EamA; cl01037 361100001358 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100001359 EamA-like transporter family; Region: EamA; cl01037 361100001360 YhhN-like protein; Region: YhhN; cl01505 361100001361 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100001362 Catalytic site [active] 361100001363 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 361100001364 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100001365 binding surface 361100001366 TPR motif; other site 361100001367 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100001368 EamA-like transporter family; Region: EamA; cl01037 361100001369 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 361100001370 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 361100001371 calcium/proton exchanger (cax); Region: cax; TIGR00378 361100001372 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 361100001373 Radical SAM superfamily; Region: Radical_SAM; pfam04055 361100001374 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100001375 FeS/SAM binding site; other site 361100001376 YfkB-like domain; Region: YfkB; pfam08756 361100001377 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 361100001378 Fumarase C-terminus; Region: Fumerase_C; cl00795 361100001379 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 361100001380 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 361100001381 NodB motif; other site 361100001382 active site 361100001383 catalytic site [active] 361100001384 Cd binding site [ion binding]; other site 361100001385 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 361100001386 endonuclease III; Region: ENDO3c; smart00478 361100001387 minor groove reading motif; other site 361100001388 helix-hairpin-helix signature motif; other site 361100001389 substrate binding pocket [chemical binding]; other site 361100001390 active site 361100001391 TRAM domain; Region: TRAM; cl01282 361100001392 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 361100001393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100001394 S-adenosylmethionine binding site [chemical binding]; other site 361100001395 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 361100001396 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 361100001397 dimerization interface 3.5A [polypeptide binding]; other site 361100001398 active site 361100001399 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 361100001400 putative catalytic residues [active] 361100001401 putative catalytic loop [active] 361100001402 putative metal binding site [ion binding]; other site 361100001403 putative activation loop; other site 361100001404 HIRAN domain; Region: HIRAN; cl07418 361100001405 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 361100001406 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100001407 Walker A motif; other site 361100001408 ATP binding site [chemical binding]; other site 361100001409 Walker B motif; other site 361100001410 arginine finger; other site 361100001411 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 361100001412 S-methylmethionine transporter; Provisional; Region: PRK11387 361100001413 acetylornithine deacetylase; Validated; Region: PRK08596 361100001414 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 361100001415 metal binding site [ion binding]; metal-binding site 361100001416 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100001417 non-specific DNA binding site [nucleotide binding]; other site 361100001418 salt bridge; other site 361100001419 sequence-specific DNA binding site [nucleotide binding]; other site 361100001420 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 361100001421 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 361100001422 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 361100001423 Glutaminase; Region: Glutaminase; cl00907 361100001424 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 361100001425 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100001426 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 361100001427 active site turn [active] 361100001428 phosphorylation site [posttranslational modification] 361100001429 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100001430 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 361100001431 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 361100001432 active site 361100001433 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 361100001434 active site 361100001435 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 361100001436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001437 NAD(P) binding site [chemical binding]; other site 361100001438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001440 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 361100001441 NAD(P) binding site [chemical binding]; other site 361100001442 active site 361100001443 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100001444 active site 361100001445 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100001446 active site 361100001447 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 361100001448 Pyruvate formate lyase 1; Region: PFL1; cd01678 361100001449 coenzyme A binding site [chemical binding]; other site 361100001450 active site 361100001451 catalytic residues [active] 361100001452 glycine loop; other site 361100001453 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 361100001454 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100001455 FeS/SAM binding site; other site 361100001456 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 361100001457 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 361100001458 YfhE-like protein; Region: YfhE; pfam14152 361100001459 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100001460 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 361100001461 active site 361100001462 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 361100001463 TIGR01777 family protein; Region: yfcH 361100001464 putative NAD(P) binding site [chemical binding]; other site 361100001465 putative active site [active] 361100001466 RecX family; Region: RecX; cl00936 361100001467 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 361100001468 YpzG-like protein; Region: YpzG; pfam14139 361100001469 Small acid-soluble spore protein K family; Region: SspK; cl11509 361100001470 WVELL protein; Region: WVELL; pfam14043 361100001471 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 361100001472 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 361100001473 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 361100001474 minor groove reading motif; other site 361100001475 helix-hairpin-helix signature motif; other site 361100001476 substrate binding pocket [chemical binding]; other site 361100001477 active site 361100001478 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 361100001479 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 361100001480 DNA binding and oxoG recognition site [nucleotide binding] 361100001481 YgaB-like protein; Region: YgaB; pfam14182 361100001482 Protein of unknown function (DUF402); Region: DUF402; cl00979 361100001483 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100001484 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100001485 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 361100001486 Walker A/P-loop; other site 361100001487 ATP binding site [chemical binding]; other site 361100001488 Q-loop/lid; other site 361100001489 ABC transporter signature motif; other site 361100001490 Walker B; other site 361100001491 D-loop; other site 361100001492 H-loop/switch region; other site 361100001493 Predicted membrane protein [Function unknown]; Region: COG4129 361100001494 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 361100001495 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 361100001496 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 361100001497 active site 361100001498 dimer interface [polypeptide binding]; other site 361100001499 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 361100001500 active site 361100001501 FMN binding site [chemical binding]; other site 361100001502 substrate binding site [chemical binding]; other site 361100001503 3Fe-4S cluster binding site [ion binding]; other site 361100001504 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 361100001505 domain_subunit interface; other site 361100001506 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 361100001507 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100001508 inhibitor-cofactor binding pocket; inhibition site 361100001509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100001510 catalytic residue [active] 361100001511 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 361100001512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100001513 Walker A/P-loop; other site 361100001514 ATP binding site [chemical binding]; other site 361100001515 Q-loop/lid; other site 361100001516 ABC transporter signature motif; other site 361100001517 Walker B; other site 361100001518 D-loop; other site 361100001519 H-loop/switch region; other site 361100001520 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 361100001521 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 361100001522 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 361100001523 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 361100001524 Ion channel; Region: Ion_trans_2; cl11596 361100001525 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 361100001526 catalytic triad [active] 361100001527 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 361100001528 metal binding site 2 [ion binding]; metal-binding site 361100001529 putative DNA binding helix; other site 361100001530 metal binding site 1 [ion binding]; metal-binding site 361100001531 dimer interface [polypeptide binding]; other site 361100001532 structural Zn2+ binding site [ion binding]; other site 361100001533 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 361100001534 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100001535 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (5S ribosomal RNA) 361100001536 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 361100001537 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100001538 active site 361100001539 DNA binding site [nucleotide binding] 361100001540 Int/Topo IB signature motif; other site 361100001541 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100001542 Predicted transcriptional regulator [Transcription]; Region: COG1709 361100001543 non-specific DNA binding site [nucleotide binding]; other site 361100001544 salt bridge; other site 361100001545 sequence-specific DNA binding site [nucleotide binding]; other site 361100001546 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100001547 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100001548 catalytic residues [active] 361100001549 catalytic nucleophile [active] 361100001550 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100001551 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100001552 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100001553 Synaptic Site I dimer interface [polypeptide binding]; other site 361100001554 DNA binding site [nucleotide binding] 361100001555 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 361100001556 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100001557 TPR motif; other site 361100001558 binding surface 361100001559 Proteins of 100 residues with WXG; Region: WXG100; cl02005 361100001560 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional; Region: PRK14165 361100001561 Transcriptional regulator; Region: Transcrip_reg; cl00361 361100001562 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 361100001563 nudix motif; other site 361100001564 Transglycosylase; Region: Transgly; cl07896 361100001565 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 361100001566 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 361100001567 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100001568 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 361100001569 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 361100001570 NlpC/P60 family; Region: NLPC_P60; cl11438 361100001571 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 361100001572 PAS fold; Region: PAS_4; pfam08448 361100001573 PAS domain S-box; Region: sensory_box; TIGR00229 361100001574 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100001575 putative active site [active] 361100001576 heme pocket [chemical binding]; other site 361100001577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100001578 metal binding site [ion binding]; metal-binding site 361100001579 active site 361100001580 I-site; other site 361100001581 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100001582 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 361100001583 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 361100001584 Uncharacterized conserved protein [Function unknown]; Region: COG2718 361100001585 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 361100001586 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100001587 heme-binding site [chemical binding]; other site 361100001588 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 361100001589 Leucine-rich repeats; other site 361100001590 Substrate binding site [chemical binding]; other site 361100001591 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 361100001592 BCCT family transporter; Region: BCCT; cl00569 361100001593 FOG: PKD repeat [General function prediction only]; Region: COG3291 361100001594 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 361100001595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 361100001596 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 361100001597 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 361100001598 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 361100001599 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100001600 dimerization interface [polypeptide binding]; other site 361100001601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100001602 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 361100001603 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100001604 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100001605 ATP binding site [chemical binding]; other site 361100001606 Mg2+ binding site [ion binding]; other site 361100001607 G-X-G motif; other site 361100001608 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 361100001609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001610 active site 361100001611 phosphorylation site [posttranslational modification] 361100001612 intermolecular recognition site; other site 361100001613 dimerization interface [polypeptide binding]; other site 361100001614 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 361100001615 Citrate transporter; Region: CitMHS; pfam03600 361100001616 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 361100001617 NosL; Region: NosL; cl01769 361100001618 ankyrin repeat protein; Provisional; Region: PHA03100 361100001619 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 361100001620 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 361100001621 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 361100001622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100001623 Walker A/P-loop; other site 361100001624 ATP binding site [chemical binding]; other site 361100001625 Q-loop/lid; other site 361100001626 ABC transporter signature motif; other site 361100001627 Walker B; other site 361100001628 D-loop; other site 361100001629 H-loop/switch region; other site 361100001630 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 361100001631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001632 dimer interface [polypeptide binding]; other site 361100001633 putative PBP binding loops; other site 361100001634 ABC-ATPase subunit interface; other site 361100001635 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 361100001636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100001637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001638 dimer interface [polypeptide binding]; other site 361100001639 conserved gate region; other site 361100001640 putative PBP binding loops; other site 361100001641 ABC-ATPase subunit interface; other site 361100001642 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 361100001643 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100001644 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100001645 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 361100001646 active site 361100001647 metal binding site [ion binding]; metal-binding site 361100001648 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100001649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001650 active site 361100001651 phosphorylation site [posttranslational modification] 361100001652 intermolecular recognition site; other site 361100001653 dimerization interface [polypeptide binding]; other site 361100001654 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100001655 DNA binding site [nucleotide binding] 361100001656 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100001657 dimer interface [polypeptide binding]; other site 361100001658 phosphorylation site [posttranslational modification] 361100001659 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100001660 ATP binding site [chemical binding]; other site 361100001661 Mg2+ binding site [ion binding]; other site 361100001662 G-X-G motif; other site 361100001663 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 361100001664 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39A; cd02549 361100001665 putative active site [active] 361100001666 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 361100001667 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 361100001668 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100001669 dimerization interface [polypeptide binding]; other site 361100001670 sensory histidine kinase DcuS; Provisional; Region: PRK11086 361100001671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100001672 ATP binding site [chemical binding]; other site 361100001673 Mg2+ binding site [ion binding]; other site 361100001674 G-X-G motif; other site 361100001675 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 361100001676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001677 active site 361100001678 phosphorylation site [posttranslational modification] 361100001679 intermolecular recognition site; other site 361100001680 dimerization interface [polypeptide binding]; other site 361100001681 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 361100001682 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 361100001683 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 361100001684 putative NAD(P) binding site [chemical binding]; other site 361100001685 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100001686 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100001687 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100001688 DNA-binding site [nucleotide binding]; DNA binding site 361100001689 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100001690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100001691 homodimer interface [polypeptide binding]; other site 361100001692 catalytic residue [active] 361100001693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 361100001694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100001695 Coenzyme A binding pocket [chemical binding]; other site 361100001696 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100001697 dimerization interface [polypeptide binding]; other site 361100001698 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100001699 dimer interface [polypeptide binding]; other site 361100001700 phosphorylation site [posttranslational modification] 361100001701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100001702 ATP binding site [chemical binding]; other site 361100001703 Mg2+ binding site [ion binding]; other site 361100001704 G-X-G motif; other site 361100001705 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100001706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001707 active site 361100001708 phosphorylation site [posttranslational modification] 361100001709 intermolecular recognition site; other site 361100001710 dimerization interface [polypeptide binding]; other site 361100001711 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100001712 DNA binding site [nucleotide binding] 361100001713 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 361100001714 Arrestin_N terminal like; Region: LDB19; pfam13002 361100001715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100001716 Coenzyme A binding pocket [chemical binding]; other site 361100001717 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 361100001718 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 361100001719 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 361100001720 catalytic loop [active] 361100001721 iron binding site [ion binding]; other site 361100001722 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 361100001723 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 361100001724 [4Fe-4S] binding site [ion binding]; other site 361100001725 molybdopterin cofactor binding site; other site 361100001726 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 361100001727 molybdopterin cofactor binding site; other site 361100001728 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 361100001729 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 361100001730 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 361100001731 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 361100001732 putative active site [active] 361100001733 catalytic site [active] 361100001734 putative metal binding site [ion binding]; other site 361100001735 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 361100001736 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 361100001737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100001738 amino acid transporter; Region: 2A0306; TIGR00909 361100001739 Spore germination protein; Region: Spore_permease; cl15802 361100001740 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100001741 dimerization interface [polypeptide binding]; other site 361100001742 putative DNA binding site [nucleotide binding]; other site 361100001743 putative Zn2+ binding site [ion binding]; other site 361100001744 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 361100001745 metal-binding site [ion binding] 361100001746 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 361100001747 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 361100001748 metal-binding site [ion binding] 361100001749 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100001750 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 361100001751 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 361100001752 active site 361100001753 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100001754 non-specific DNA binding site [nucleotide binding]; other site 361100001755 salt bridge; other site 361100001756 sequence-specific DNA binding site [nucleotide binding]; other site 361100001757 photosystem I assembly protein Ycf3; Region: ycf3; CHL00033 361100001758 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100001759 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 361100001760 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100001761 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 361100001762 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 361100001763 active site 361100001764 Zn binding site [ion binding]; other site 361100001765 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100001766 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 361100001767 VanW like protein; Region: VanW; pfam04294 361100001768 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100001769 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 361100001770 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100001771 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 361100001772 putative metal binding site [ion binding]; other site 361100001773 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 361100001774 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 361100001775 Transporter associated domain; Region: CorC_HlyC; cl08393 361100001776 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 361100001777 Aspartase; Region: Aspartase; cd01357 361100001778 active sites [active] 361100001779 tetramer interface [polypeptide binding]; other site 361100001780 glycolate transporter; Provisional; Region: PRK09695 361100001781 L-lactate permease; Region: Lactate_perm; cl00701 361100001782 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100001783 putative DNA binding site [nucleotide binding]; other site 361100001784 putative Zn2+ binding site [ion binding]; other site 361100001785 Small acid-soluble spore protein H family; Region: SspH; cl06949 361100001786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 361100001787 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 361100001788 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100001789 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 361100001790 siderophore binding site; other site 361100001791 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100001792 ABC-ATPase subunit interface; other site 361100001793 dimer interface [polypeptide binding]; other site 361100001794 putative PBP binding regions; other site 361100001795 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 361100001796 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100001797 ABC-ATPase subunit interface; other site 361100001798 dimer interface [polypeptide binding]; other site 361100001799 putative PBP binding regions; other site 361100001800 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100001801 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100001802 Walker A/P-loop; other site 361100001803 ATP binding site [chemical binding]; other site 361100001804 Q-loop/lid; other site 361100001805 ABC transporter signature motif; other site 361100001806 Walker B; other site 361100001807 D-loop; other site 361100001808 H-loop/switch region; other site 361100001809 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100001810 S-adenosylmethionine binding site [chemical binding]; other site 361100001811 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 361100001812 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 361100001813 substrate-cofactor binding pocket; other site 361100001814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100001815 catalytic residue [active] 361100001816 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 361100001817 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 361100001818 NAD binding site [chemical binding]; other site 361100001819 homodimer interface [polypeptide binding]; other site 361100001820 active site 361100001821 putative substrate binding site [chemical binding]; other site 361100001822 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100001823 active site 361100001824 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 361100001825 nudix motif; other site 361100001826 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 361100001827 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 361100001828 metal ion-dependent adhesion site (MIDAS); other site 361100001829 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100001830 Walker A motif; other site 361100001831 ATP binding site [chemical binding]; other site 361100001832 Walker B motif; other site 361100001833 arginine finger; other site 361100001834 cardiolipin synthetase; Reviewed; Region: PRK12452 361100001835 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100001836 putative active site [active] 361100001837 catalytic site [active] 361100001838 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100001839 putative active site [active] 361100001840 catalytic site [active] 361100001841 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100001842 PAS domain; Region: PAS_9; pfam13426 361100001843 putative active site [active] 361100001844 heme pocket [chemical binding]; other site 361100001845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100001846 metal binding site [ion binding]; metal-binding site 361100001847 active site 361100001848 I-site; other site 361100001849 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100001850 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 361100001851 Spore germination protein; Region: Spore_permease; cl15802 361100001852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100001853 DNA-binding site [nucleotide binding]; DNA binding site 361100001854 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 361100001855 UTRA domain; Region: UTRA; cl01230 361100001856 potential frameshift: common BLAST hit: gi|218234137|ref|YP_002365427.1| PTS system, trehalose-specific IIBC component 361100001857 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 361100001858 active site turn [active] 361100001859 phosphorylation site [posttranslational modification] 361100001860 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100001861 potential frameshift: common BLAST hit: gi|218234137|ref|YP_002365427.1| PTS system, trehalose-specific IIBC component 361100001862 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 361100001863 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100001864 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 361100001865 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 361100001866 Ca binding site [ion binding]; other site 361100001867 active site 361100001868 catalytic site [active] 361100001869 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100001870 Spore germination protein; Region: Spore_permease; cl15802 361100001871 CAAX protease self-immunity; Region: Abi; cl00558 361100001872 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100001873 active site 361100001874 ATP binding site [chemical binding]; other site 361100001875 substrate binding site [chemical binding]; other site 361100001876 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100001877 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 361100001878 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 361100001879 Walker A/P-loop; other site 361100001880 ATP binding site [chemical binding]; other site 361100001881 Q-loop/lid; other site 361100001882 ABC transporter signature motif; other site 361100001883 Walker B; other site 361100001884 D-loop; other site 361100001885 H-loop/switch region; other site 361100001886 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 361100001887 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100001888 substrate binding pocket [chemical binding]; other site 361100001889 membrane-bound complex binding site; other site 361100001890 hinge residues; other site 361100001891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001892 dimer interface [polypeptide binding]; other site 361100001893 conserved gate region; other site 361100001894 putative PBP binding loops; other site 361100001895 ABC-ATPase subunit interface; other site 361100001896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001897 dimer interface [polypeptide binding]; other site 361100001898 conserved gate region; other site 361100001899 putative PBP binding loops; other site 361100001900 ABC-ATPase subunit interface; other site 361100001901 S-methylmethionine transporter; Provisional; Region: PRK11387 361100001902 OsmC-like protein; Region: OsmC; cl00767 361100001903 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 361100001904 nucleotide binding site/active site [active] 361100001905 HIT family signature motif; other site 361100001906 catalytic residue [active] 361100001907 RNA polymerase sigma factor; Provisional; Region: PRK12542 361100001908 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100001909 DNA binding residues [nucleotide binding] 361100001910 Predicted transcriptional regulator [Transcription]; Region: COG2378 361100001911 Helix-turn-helix domains; Region: HTH; cl00088 361100001912 WYL domain; Region: WYL; cl14852 361100001913 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 361100001914 folate binding site [chemical binding]; other site 361100001915 NADP+ binding site [chemical binding]; other site 361100001916 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 361100001917 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100001918 dimerization interface [polypeptide binding]; other site 361100001919 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100001920 dimer interface [polypeptide binding]; other site 361100001921 phosphorylation site [posttranslational modification] 361100001922 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100001923 ATP binding site [chemical binding]; other site 361100001924 Mg2+ binding site [ion binding]; other site 361100001925 G-X-G motif; other site 361100001926 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100001927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100001928 active site 361100001929 phosphorylation site [posttranslational modification] 361100001930 intermolecular recognition site; other site 361100001931 dimerization interface [polypeptide binding]; other site 361100001932 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100001933 DNA binding site [nucleotide binding] 361100001934 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 361100001935 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 361100001936 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 361100001937 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 361100001938 Ligand Binding Site [chemical binding]; other site 361100001939 Protein of unknown function (DUF4027); Region: DUF4027; pfam13219 361100001940 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 361100001941 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 361100001942 peptide binding site [polypeptide binding]; other site 361100001943 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100001944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001945 dimer interface [polypeptide binding]; other site 361100001946 conserved gate region; other site 361100001947 putative PBP binding loops; other site 361100001948 ABC-ATPase subunit interface; other site 361100001949 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 361100001950 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100001951 dimer interface [polypeptide binding]; other site 361100001952 conserved gate region; other site 361100001953 putative PBP binding loops; other site 361100001954 ABC-ATPase subunit interface; other site 361100001955 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 361100001956 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100001957 Walker A/P-loop; other site 361100001958 ATP binding site [chemical binding]; other site 361100001959 Q-loop/lid; other site 361100001960 ABC transporter signature motif; other site 361100001961 Walker B; other site 361100001962 D-loop; other site 361100001963 H-loop/switch region; other site 361100001964 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100001965 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 361100001966 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100001967 Walker A/P-loop; other site 361100001968 ATP binding site [chemical binding]; other site 361100001969 Q-loop/lid; other site 361100001970 ABC transporter signature motif; other site 361100001971 Walker B; other site 361100001972 D-loop; other site 361100001973 H-loop/switch region; other site 361100001974 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100001975 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 361100001976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001977 putative substrate translocation pore; other site 361100001978 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100001979 Helix-turn-helix domains; Region: HTH; cl00088 361100001980 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 361100001981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100001982 putative substrate translocation pore; other site 361100001983 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100001984 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100001985 DNA binding site [nucleotide binding] 361100001986 domain linker motif; other site 361100001987 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 361100001988 dimerization interface [polypeptide binding]; other site 361100001989 ligand binding site [chemical binding]; other site 361100001990 sodium binding site [ion binding]; other site 361100001991 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 361100001992 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 361100001993 substrate binding site [chemical binding]; other site 361100001994 dimer interface [polypeptide binding]; other site 361100001995 ATP binding site [chemical binding]; other site 361100001996 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 361100001997 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 361100001998 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 361100001999 Walker A/P-loop; other site 361100002000 ATP binding site [chemical binding]; other site 361100002001 Q-loop/lid; other site 361100002002 ABC transporter signature motif; other site 361100002003 Walker B; other site 361100002004 D-loop; other site 361100002005 H-loop/switch region; other site 361100002006 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 361100002007 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 361100002008 TM-ABC transporter signature motif; other site 361100002009 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 361100002010 ligand binding site [chemical binding]; other site 361100002011 dimerization interface [polypeptide binding]; other site 361100002012 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 361100002013 active site 361100002014 intersubunit interactions; other site 361100002015 catalytic residue [active] 361100002016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 361100002017 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 361100002018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100002020 putative substrate translocation pore; other site 361100002021 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 361100002022 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 361100002023 putative NAD(P) binding site [chemical binding]; other site 361100002024 catalytic Zn binding site [ion binding]; other site 361100002025 voltage-gated potassium channel; Provisional; Region: PRK10537 361100002026 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 361100002027 Zn binding site [ion binding]; other site 361100002028 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100002029 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100002030 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 361100002031 putative catalytic site [active] 361100002032 metal binding site A [ion binding]; metal-binding site 361100002033 phosphate binding site [ion binding]; other site 361100002034 metal binding site C [ion binding]; metal-binding site 361100002035 metal binding site B [ion binding]; metal-binding site 361100002036 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 2; Region: PLPDE_III_DSD_D-TA_like_2; cd06813 361100002037 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 361100002038 dimer interface [polypeptide binding]; other site 361100002039 active site 361100002040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 361100002041 substrate binding site [chemical binding]; other site 361100002042 catalytic residue [active] 361100002043 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 361100002044 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 361100002045 VanZ like family; Region: VanZ; cl01971 361100002046 Bacitracin resistance protein BacA; Region: BacA; cl00858 361100002047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100002048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 361100002049 3D domain; Region: 3D; cl01439 361100002050 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100002051 non-specific DNA binding site [nucleotide binding]; other site 361100002052 salt bridge; other site 361100002053 sequence-specific DNA binding site [nucleotide binding]; other site 361100002054 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 361100002055 active site 361100002056 catalytic site [active] 361100002057 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 361100002058 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002059 putative substrate translocation pore; other site 361100002060 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100002061 Predicted membrane protein [Function unknown]; Region: COG5373 361100002062 Predicted membrane protein [Function unknown]; Region: COG5373 361100002063 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 361100002064 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 361100002065 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100002066 non-specific DNA binding site [nucleotide binding]; other site 361100002067 salt bridge; other site 361100002068 sequence-specific DNA binding site [nucleotide binding]; other site 361100002069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100002070 Coenzyme A binding pocket [chemical binding]; other site 361100002071 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100002072 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 361100002073 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 361100002074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100002075 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 361100002076 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 361100002077 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 361100002078 Subunit I/III interface [polypeptide binding]; other site 361100002079 Subunit III/IV interface [polypeptide binding]; other site 361100002080 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 361100002081 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 361100002082 D-pathway; other site 361100002083 Putative ubiquinol binding site [chemical binding]; other site 361100002084 Low-spin heme (heme b) binding site [chemical binding]; other site 361100002085 Putative water exit pathway; other site 361100002086 Binuclear center (heme o3/CuB) [ion binding]; other site 361100002087 K-pathway; other site 361100002088 Putative proton exit pathway; other site 361100002089 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 361100002090 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 361100002091 S-methylmethionine transporter; Provisional; Region: PRK11387 361100002092 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 361100002093 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39A; cd02549 361100002094 putative active site [active] 361100002095 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 361100002096 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 361100002097 metal binding site [ion binding]; metal-binding site 361100002098 dimer interface [polypeptide binding]; other site 361100002099 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 361100002100 Sodium:solute symporter family; Region: SSF; cl00456 361100002101 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 361100002102 Spore germination protein; Region: Spore_permease; cl15802 361100002103 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100002104 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 361100002105 Nucleoside recognition; Region: Gate; cl00486 361100002106 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 361100002107 Nucleoside recognition; Region: Gate; cl00486 361100002108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002109 FeoA domain; Region: FeoA; cl00838 361100002110 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100002111 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 361100002112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002113 dimer interface [polypeptide binding]; other site 361100002114 conserved gate region; other site 361100002115 putative PBP binding loops; other site 361100002116 ABC-ATPase subunit interface; other site 361100002117 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 361100002118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002119 dimer interface [polypeptide binding]; other site 361100002120 conserved gate region; other site 361100002121 putative PBP binding loops; other site 361100002122 ABC-ATPase subunit interface; other site 361100002123 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 361100002124 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100002125 FOG: CBS domain [General function prediction only]; Region: COG0517 361100002126 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 361100002127 Domain of unknown function (DUF3960); Region: DUF3960; pfam13142 361100002128 Protein of unknown function (DUF3965); Region: DUF3965; pfam13112 361100002129 Bacterial SH3 domain; Region: SH3_3; cl02551 361100002130 Bacterial SH3 domain; Region: SH3_3; cl02551 361100002131 Bacterial SH3 domain; Region: SH3_3; cl02551 361100002132 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100002133 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 361100002134 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 361100002135 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 361100002136 Walker A/P-loop; other site 361100002137 ATP binding site [chemical binding]; other site 361100002138 Q-loop/lid; other site 361100002139 ABC transporter signature motif; other site 361100002140 Walker B; other site 361100002141 D-loop; other site 361100002142 H-loop/switch region; other site 361100002143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002144 dimer interface [polypeptide binding]; other site 361100002145 conserved gate region; other site 361100002146 putative PBP binding loops; other site 361100002147 ABC-ATPase subunit interface; other site 361100002148 NMT1/THI5 like; Region: NMT1; pfam09084 361100002149 NMT1-like family; Region: NMT1_2; cl15260 361100002150 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 361100002151 thiamine phosphate binding site [chemical binding]; other site 361100002152 active site 361100002153 pyrophosphate binding site [ion binding]; other site 361100002154 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 361100002155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100002156 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 361100002157 thiS-thiF/thiG interaction site; other site 361100002158 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 361100002159 ThiS interaction site; other site 361100002160 putative active site [active] 361100002161 tetramer interface [polypeptide binding]; other site 361100002162 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 361100002163 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 361100002164 ATP binding site [chemical binding]; other site 361100002165 substrate interface [chemical binding]; other site 361100002166 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 361100002167 dimer interface [polypeptide binding]; other site 361100002168 substrate binding site [chemical binding]; other site 361100002169 ATP binding site [chemical binding]; other site 361100002170 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 361100002171 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 361100002172 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100002173 K+-transporting ATPase, c chain; Region: KdpC; cl00944 361100002174 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 361100002175 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 361100002176 Ligand Binding Site [chemical binding]; other site 361100002177 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 361100002178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002179 putative substrate translocation pore; other site 361100002180 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100002181 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 361100002182 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 361100002183 active site 361100002184 nucleophile elbow; other site 361100002185 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 361100002186 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100002187 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100002188 Walker A/P-loop; other site 361100002189 ATP binding site [chemical binding]; other site 361100002190 Q-loop/lid; other site 361100002191 ABC transporter signature motif; other site 361100002192 Walker B; other site 361100002193 D-loop; other site 361100002194 H-loop/switch region; other site 361100002195 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 361100002196 TM-ABC transporter signature motif; other site 361100002197 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 361100002198 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 361100002199 Walker A/P-loop; other site 361100002200 ATP binding site [chemical binding]; other site 361100002201 Q-loop/lid; other site 361100002202 ABC transporter signature motif; other site 361100002203 Walker B; other site 361100002204 D-loop; other site 361100002205 H-loop/switch region; other site 361100002206 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 361100002207 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 361100002208 D-allose transporter subunit; Provisional; Region: PRK09701 361100002209 putative ligand binding site [chemical binding]; other site 361100002210 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 361100002211 short chain dehydrogenase; Provisional; Region: PRK06701 361100002212 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 361100002213 NAD binding site [chemical binding]; other site 361100002214 metal binding site [ion binding]; metal-binding site 361100002215 active site 361100002216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 361100002217 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 361100002218 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100002219 catalytic residues [active] 361100002220 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 361100002221 YhdB-like protein; Region: YhdB; pfam14148 361100002222 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 361100002223 Spore germination protein; Region: Spore_permease; cl15802 361100002224 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100002225 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 361100002226 putative FMN binding site [chemical binding]; other site 361100002227 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 361100002228 SpoVR like protein; Region: SpoVR; pfam04293 361100002229 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 361100002230 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 361100002231 active site residue [active] 361100002232 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 361100002233 putative homodimer interface [polypeptide binding]; other site 361100002234 putative homotetramer interface [polypeptide binding]; other site 361100002235 putative metal binding site [ion binding]; other site 361100002236 putative homodimer-homodimer interface [polypeptide binding]; other site 361100002237 putative allosteric switch controlling residues; other site 361100002238 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 361100002239 CPxP motif; other site 361100002240 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 361100002241 active site residue [active] 361100002242 Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain; Region: RHOD_Lact_B; cd01523 361100002243 active site residue [active] 361100002244 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100002245 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 361100002246 CPxP motif; other site 361100002247 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 361100002248 CPxP motif; other site 361100002249 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 361100002250 active site residue [active] 361100002251 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 361100002252 active site residue [active] 361100002253 DsrE/DsrF-like family; Region: DrsE; cl00672 361100002254 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 361100002255 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100002256 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 361100002257 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 361100002258 NADP binding site [chemical binding]; other site 361100002259 dimer interface [polypeptide binding]; other site 361100002260 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 361100002261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002262 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100002263 putative substrate translocation pore; other site 361100002264 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 361100002265 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 361100002266 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 361100002267 active site 361100002268 P-loop; other site 361100002269 phosphorylation site [posttranslational modification] 361100002270 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 361100002271 active site 361100002272 phosphorylation site [posttranslational modification] 361100002273 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 361100002274 active site 361100002275 methionine cluster; other site 361100002276 phosphorylation site [posttranslational modification] 361100002277 metal binding site [ion binding]; metal-binding site 361100002278 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 361100002279 active site 361100002280 P-loop; other site 361100002281 phosphorylation site [posttranslational modification] 361100002282 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100002283 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 361100002284 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 361100002285 Bacterial SH3 domain; Region: SH3_3; cl02551 361100002286 Bacterial SH3 domain; Region: SH3_3; cl02551 361100002287 3D domain; Region: 3D; cl01439 361100002288 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 361100002289 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100002290 Walker A/P-loop; other site 361100002291 ATP binding site [chemical binding]; other site 361100002292 ABC transporter; Region: ABC_tran; pfam00005 361100002293 Q-loop/lid; other site 361100002294 ABC transporter signature motif; other site 361100002295 Walker B; other site 361100002296 D-loop; other site 361100002297 H-loop/switch region; other site 361100002298 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 361100002299 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 361100002300 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 361100002301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100002302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002303 dimer interface [polypeptide binding]; other site 361100002304 conserved gate region; other site 361100002305 ABC-ATPase subunit interface; other site 361100002306 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100002307 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 361100002308 dimanganese center [ion binding]; other site 361100002309 CotJB protein; Region: CotJB; pfam12652 361100002310 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 361100002311 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100002312 active site 361100002313 metal binding site [ion binding]; metal-binding site 361100002314 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 361100002315 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 361100002316 putative DNA binding site [nucleotide binding]; other site 361100002317 putative homodimer interface [polypeptide binding]; other site 361100002318 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 361100002319 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 361100002320 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100002321 Protein of unknown function (DUF3992); Region: DUF3992; pfam13157 361100002322 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 361100002323 active site 361100002324 metal binding site [ion binding]; metal-binding site 361100002325 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 361100002326 Interdomain contacts; other site 361100002327 Cytokine receptor motif; other site 361100002328 amino acid transporter; Region: 2A0306; TIGR00909 361100002329 Spore germination protein; Region: Spore_permease; cl15802 361100002330 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100002331 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 361100002332 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 361100002333 putative active site [active] 361100002334 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 361100002335 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 361100002336 putative active site [active] 361100002337 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 361100002338 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 361100002339 active site turn [active] 361100002340 phosphorylation site [posttranslational modification] 361100002341 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100002342 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 361100002343 DoxX; Region: DoxX; cl00976 361100002344 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 361100002345 hypothetical protein; Provisional; Region: PRK06770 361100002346 EamA-like transporter family; Region: EamA; cl01037 361100002347 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 361100002348 EamA-like transporter family; Region: EamA; cl01037 361100002349 Helix-turn-helix domains; Region: HTH; cl00088 361100002350 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 361100002351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100002352 Coenzyme A binding pocket [chemical binding]; other site 361100002353 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100002354 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100002355 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100002356 Helix-turn-helix domains; Region: HTH; cl00088 361100002357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002358 D-galactonate transporter; Region: 2A0114; TIGR00893 361100002359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002360 Helix-turn-helix domains; Region: HTH; cl00088 361100002361 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 361100002362 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100002363 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 361100002364 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 361100002365 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100002366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002367 putative substrate translocation pore; other site 361100002368 intracellular protease, PfpI family; Region: PfpI; TIGR01382 361100002369 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 361100002370 proposed catalytic triad [active] 361100002371 conserved cys residue [active] 361100002372 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 361100002373 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 361100002374 tetramer interface [polypeptide binding]; other site 361100002375 heme binding pocket [chemical binding]; other site 361100002376 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 361100002377 domain interactions; other site 361100002378 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 361100002379 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 361100002380 Spore germination protein; Region: Spore_permease; cl15802 361100002381 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 361100002382 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 361100002383 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 361100002384 tetrameric interface [polypeptide binding]; other site 361100002385 activator binding site; other site 361100002386 NADP binding site [chemical binding]; other site 361100002387 substrate binding site [chemical binding]; other site 361100002388 catalytic residues [active] 361100002389 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 361100002390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002391 Walker A/P-loop; other site 361100002392 ATP binding site [chemical binding]; other site 361100002393 Q-loop/lid; other site 361100002394 ABC transporter signature motif; other site 361100002395 Walker B; other site 361100002396 D-loop; other site 361100002397 H-loop/switch region; other site 361100002398 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100002399 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 361100002400 Walker A/P-loop; other site 361100002401 ATP binding site [chemical binding]; other site 361100002402 Q-loop/lid; other site 361100002403 ABC transporter signature motif; other site 361100002404 Walker B; other site 361100002405 D-loop; other site 361100002406 H-loop/switch region; other site 361100002407 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 361100002408 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100002409 substrate binding pocket [chemical binding]; other site 361100002410 membrane-bound complex binding site; other site 361100002411 hinge residues; other site 361100002412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002413 dimer interface [polypeptide binding]; other site 361100002414 conserved gate region; other site 361100002415 putative PBP binding loops; other site 361100002416 ABC-ATPase subunit interface; other site 361100002417 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 361100002418 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 361100002419 Walker A/P-loop; other site 361100002420 ATP binding site [chemical binding]; other site 361100002421 Q-loop/lid; other site 361100002422 ABC transporter signature motif; other site 361100002423 Walker B; other site 361100002424 D-loop; other site 361100002425 H-loop/switch region; other site 361100002426 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100002427 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100002428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 361100002429 Protein of unknown function (DUF964); Region: DUF964; cl01483 361100002430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 361100002431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100002432 ATP binding site [chemical binding]; other site 361100002433 Mg2+ binding site [ion binding]; other site 361100002434 G-X-G motif; other site 361100002435 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100002436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100002437 active site 361100002438 phosphorylation site [posttranslational modification] 361100002439 intermolecular recognition site; other site 361100002440 dimerization interface [polypeptide binding]; other site 361100002441 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100002442 dimerization interface [polypeptide binding]; other site 361100002443 DNA binding residues [nucleotide binding] 361100002444 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 361100002445 acetolactate synthase; Reviewed; Region: PRK08617 361100002446 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 361100002447 PYR/PP interface [polypeptide binding]; other site 361100002448 dimer interface [polypeptide binding]; other site 361100002449 TPP binding site [chemical binding]; other site 361100002450 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 361100002451 TPP-binding site [chemical binding]; other site 361100002452 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 361100002453 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 361100002454 active site 361100002455 DNA binding site [nucleotide binding] 361100002456 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 361100002457 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100002458 active site 361100002459 motif I; other site 361100002460 motif II; other site 361100002461 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100002462 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100002463 amidase catalytic site [active] 361100002464 Zn binding residues [ion binding]; other site 361100002465 substrate binding site [chemical binding]; other site 361100002466 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 361100002467 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100002468 FeS/SAM binding site; other site 361100002469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 361100002470 putative transposase OrfB; Reviewed; Region: PHA02517 361100002471 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 361100002472 AMP-binding enzyme; Region: AMP-binding; cl15778 361100002473 AMP-binding enzyme; Region: AMP-binding; cl15778 361100002474 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 361100002475 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 361100002476 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 361100002477 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 361100002478 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100002479 nucleotide binding region [chemical binding]; other site 361100002480 ATP-binding site [chemical binding]; other site 361100002481 stage V sporulation protein B; Region: spore_V_B; TIGR02900 361100002482 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 361100002483 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 361100002484 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 361100002485 enoyl-CoA hydratase; Provisional; Region: PRK07659 361100002486 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100002487 substrate binding site [chemical binding]; other site 361100002488 oxyanion hole (OAH) forming residues; other site 361100002489 trimer interface [polypeptide binding]; other site 361100002490 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 361100002491 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 361100002492 putative oligomer interface [polypeptide binding]; other site 361100002493 putative active site [active] 361100002494 metal binding site [ion binding]; metal-binding site 361100002495 S-layer homology domain; Region: SLH; pfam00395 361100002496 S-layer homology domain; Region: SLH; pfam00395 361100002497 S-layer homology domain; Region: SLH; pfam00395 361100002498 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 361100002499 active site 361100002500 metal binding site [ion binding]; metal-binding site 361100002501 TIGR01177 family protein; Region: TIGR01177 361100002502 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100002503 S-adenosylmethionine binding site [chemical binding]; other site 361100002504 proline racemase; Provisional; Region: PRK13969 361100002505 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 361100002506 ornithine cyclodeaminase; Validated; Region: PRK08618 361100002507 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 361100002508 NAD(P) binding site [chemical binding]; other site 361100002509 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 361100002510 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 361100002511 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 361100002512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002513 dimer interface [polypeptide binding]; other site 361100002514 conserved gate region; other site 361100002515 putative PBP binding loops; other site 361100002516 ABC-ATPase subunit interface; other site 361100002517 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100002518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100002519 dimer interface [polypeptide binding]; other site 361100002520 conserved gate region; other site 361100002521 putative PBP binding loops; other site 361100002522 ABC-ATPase subunit interface; other site 361100002523 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100002524 Q-loop/lid; other site 361100002525 ABC transporter signature motif; other site 361100002526 Walker B; other site 361100002527 D-loop; other site 361100002528 H-loop/switch region; other site 361100002529 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100002530 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 361100002531 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100002532 Walker A/P-loop; other site 361100002533 ATP binding site [chemical binding]; other site 361100002534 Q-loop/lid; other site 361100002535 ABC transporter signature motif; other site 361100002536 Walker B; other site 361100002537 D-loop; other site 361100002538 H-loop/switch region; other site 361100002539 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100002540 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 361100002541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002542 putative substrate translocation pore; other site 361100002543 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 361100002544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100002545 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100002546 ATP binding site [chemical binding]; other site 361100002547 Mg2+ binding site [ion binding]; other site 361100002548 G-X-G motif; other site 361100002549 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 361100002550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100002551 active site 361100002552 phosphorylation site [posttranslational modification] 361100002553 intermolecular recognition site; other site 361100002554 dimerization interface [polypeptide binding]; other site 361100002555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 361100002556 Restriction endonuclease; Region: Mrr_cat; cl00516 361100002557 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 361100002558 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 361100002559 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 361100002560 putative metal binding site [ion binding]; other site 361100002561 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 361100002562 putative metal binding site [ion binding]; other site 361100002563 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 361100002564 Uncharacterized conserved protein [Function unknown]; Region: COG1700 361100002565 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100002566 HerA helicase [Replication, recombination, and repair]; Region: COG0433 361100002567 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 361100002568 DNA binding residues [nucleotide binding] 361100002569 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100002570 dimer interface [polypeptide binding]; other site 361100002571 heme uptake protein IsdB; Region: IsdB; TIGR03657 361100002572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 361100002573 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002574 Walker A/P-loop; other site 361100002575 ATP binding site [chemical binding]; other site 361100002576 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 361100002577 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 361100002578 active site 361100002579 metal binding site [ion binding]; metal-binding site 361100002580 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 361100002581 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 361100002582 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 361100002583 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 361100002584 Walker A motif; other site 361100002585 ATP binding site [chemical binding]; other site 361100002586 Walker B motif; other site 361100002587 DNA binding loops [nucleotide binding] 361100002588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002589 Predicted transcriptional regulators [Transcription]; Region: COG1378 361100002590 Helix-turn-helix domains; Region: HTH; cl00088 361100002591 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 361100002592 C-terminal domain interface [polypeptide binding]; other site 361100002593 sugar binding site [chemical binding]; other site 361100002594 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 361100002595 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 361100002596 Predicted permease; Region: DUF318; pfam03773 361100002597 Predicted permeases [General function prediction only]; Region: COG0701 361100002598 Helix-turn-helix domains; Region: HTH; cl00088 361100002599 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 361100002600 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 361100002601 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 361100002602 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 361100002603 CGNR zinc finger; Region: zf-CGNR; pfam11706 361100002604 HPP family; Region: HPP; pfam04982 361100002605 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 361100002606 Transcriptional regulators [Transcription]; Region: MarR; COG1846 361100002607 Helix-turn-helix domains; Region: HTH; cl00088 361100002608 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 361100002609 ATP synthase I chain; Region: ATP_synt_I; cl09170 361100002610 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 361100002611 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 361100002612 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 361100002613 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 361100002614 Helix-turn-helix domains; Region: HTH; cl00088 361100002615 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 361100002616 dihydroxyacetone kinase; Provisional; Region: PRK14479 361100002617 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 361100002618 DAK2 domain; Region: Dak2; cl03685 361100002619 CAAX protease self-immunity; Region: Abi; cl00558 361100002620 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100002621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 361100002622 Zn2+ binding site [ion binding]; other site 361100002623 Mg2+ binding site [ion binding]; other site 361100002624 S-layer homology domain; Region: SLH; pfam00395 361100002625 S-layer homology domain; Region: SLH; pfam00395 361100002626 S-layer homology domain; Region: SLH; pfam00395 361100002627 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 361100002628 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 361100002629 Helix-turn-helix domains; Region: HTH; cl00088 361100002630 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 361100002631 S-layer homology domain; Region: SLH; pfam00395 361100002632 S-layer homology domain; Region: SLH; pfam00395 361100002633 S-layer homology domain; Region: SLH; pfam00395 361100002634 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100002635 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100002636 active site 361100002637 metal binding site [ion binding]; metal-binding site 361100002638 Heat induced stress protein YflT; Region: YflT; pfam11181 361100002639 CsbD-like; Region: CsbD; cl15799 361100002640 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 361100002641 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 361100002642 anti sigma factor interaction site; other site 361100002643 regulatory phosphorylation site [posttranslational modification]; other site 361100002644 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 361100002645 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100002646 ATP binding site [chemical binding]; other site 361100002647 Mg2+ binding site [ion binding]; other site 361100002648 G-X-G motif; other site 361100002649 RNA polymerase sigma-B factor; Region: Sigma_B; TIGR02941 361100002650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100002651 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 361100002652 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100002653 DNA binding residues [nucleotide binding] 361100002654 Ferritin-like domain; Region: Ferritin; pfam00210 361100002655 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 361100002656 dinuclear metal binding motif [ion binding]; other site 361100002657 Response regulator receiver domain; Region: Response_reg; pfam00072 361100002658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100002659 active site 361100002660 phosphorylation site [posttranslational modification] 361100002661 intermolecular recognition site; other site 361100002662 dimerization interface [polypeptide binding]; other site 361100002663 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100002664 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 361100002665 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 361100002666 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100002667 CHASE3 domain; Region: CHASE3; cl05000 361100002668 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 361100002669 GAF domain; Region: GAF_2; pfam13185 361100002670 GAF domain; Region: GAF; cl15785 361100002671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100002672 dimer interface [polypeptide binding]; other site 361100002673 phosphorylation site [posttranslational modification] 361100002674 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100002675 ATP binding site [chemical binding]; other site 361100002676 Mg2+ binding site [ion binding]; other site 361100002677 G-X-G motif; other site 361100002678 Response regulator receiver domain; Region: Response_reg; pfam00072 361100002679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100002680 active site 361100002681 phosphorylation site [posttranslational modification] 361100002682 intermolecular recognition site; other site 361100002683 dimerization interface [polypeptide binding]; other site 361100002684 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 361100002685 Protein of unknown function (DUF4028); Region: DUF4028; pfam13220 361100002686 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 361100002687 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100002688 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 361100002689 NADP binding site [chemical binding]; other site 361100002690 dimer interface [polypeptide binding]; other site 361100002691 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 361100002692 YhzD-like protein; Region: YhzD; pfam14120 361100002693 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 361100002694 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100002695 active site 361100002696 metal binding site [ion binding]; metal-binding site 361100002697 AAA domain; Region: AAA_27; pfam13514 361100002698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002699 Q-loop/lid; other site 361100002700 ABC transporter signature motif; other site 361100002701 Walker B; other site 361100002702 D-loop; other site 361100002703 H-loop/switch region; other site 361100002704 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 361100002705 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 361100002706 generic binding surface II; other site 361100002707 generic binding surface I; other site 361100002708 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 361100002709 Zn2+ binding site [ion binding]; other site 361100002710 Mg2+ binding site [ion binding]; other site 361100002711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100002712 Helix-turn-helix domains; Region: HTH; cl00088 361100002713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100002714 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 361100002715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100002716 Zn binding site [ion binding]; other site 361100002717 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 361100002718 Zn binding site [ion binding]; other site 361100002719 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 361100002720 Zn binding site [ion binding]; other site 361100002721 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 361100002722 Zn binding site [ion binding]; other site 361100002723 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 361100002724 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100002725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100002726 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 361100002727 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 361100002728 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 361100002729 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 361100002730 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 361100002731 amphipathic channel; other site 361100002732 Asn-Pro-Ala signature motifs; other site 361100002733 glycerol kinase; Provisional; Region: glpK; PRK00047 361100002734 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 361100002735 N- and C-terminal domain interface [polypeptide binding]; other site 361100002736 active site 361100002737 MgATP binding site [chemical binding]; other site 361100002738 catalytic site [active] 361100002739 metal binding site [ion binding]; metal-binding site 361100002740 glycerol binding site [chemical binding]; other site 361100002741 homotetramer interface [polypeptide binding]; other site 361100002742 homodimer interface [polypeptide binding]; other site 361100002743 FBP binding site [chemical binding]; other site 361100002744 protein IIAGlc interface [polypeptide binding]; other site 361100002745 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 361100002746 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 361100002747 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100002748 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100002749 DNA binding residues [nucleotide binding] 361100002750 Helix-turn-helix domains; Region: HTH; cl00088 361100002751 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 361100002752 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16920 361100002753 TIR domain; Region: TIR_2; cl15770 361100002754 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 361100002755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002756 Family description; Region: UvrD_C_2; cl15862 361100002757 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 361100002758 PPIC-type PPIASE domain; Region: Rotamase; cl08278 361100002759 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 361100002760 transcriptional regulator Hpr; Provisional; Region: PRK13777 361100002761 Helix-turn-helix domains; Region: HTH; cl00088 361100002762 YtxH-like protein; Region: YtxH; cl02079 361100002763 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 361100002764 HIT family signature motif; other site 361100002765 catalytic residue [active] 361100002766 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 361100002767 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100002768 Walker A/P-loop; other site 361100002769 ATP binding site [chemical binding]; other site 361100002770 Q-loop/lid; other site 361100002771 ABC transporter signature motif; other site 361100002772 Walker B; other site 361100002773 D-loop; other site 361100002774 H-loop/switch region; other site 361100002775 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 361100002776 EcsC protein family; Region: EcsC; pfam12787 361100002777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100002778 Helix-turn-helix domains; Region: HTH; cl00088 361100002779 Bacterial PH domain; Region: DUF304; cl01348 361100002780 Predicted membrane protein [Function unknown]; Region: COG3428 361100002781 Bacterial PH domain; Region: DUF304; cl01348 361100002782 Bacterial PH domain; Region: DUF304; cl01348 361100002783 Bacterial PH domain; Region: DUF304; cl01348 361100002784 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 361100002785 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 361100002786 MAEBL; Provisional; Region: PTZ00121 361100002787 Bacterial PH domain; Region: DUF304; cl01348 361100002788 Predicted membrane protein [Function unknown]; Region: COG3428 361100002789 Bacterial PH domain; Region: DUF304; cl01348 361100002790 Bacterial PH domain; Region: DUF304; cl01348 361100002791 Bacterial PH domain; Region: DUF304; cl01348 361100002792 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 361100002793 Transglycosylase; Region: Transgly; cl07896 361100002794 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100002795 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100002796 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 361100002797 substrate binding site [chemical binding]; other site 361100002798 active site 361100002799 ferrochelatase; Provisional; Region: PRK12435 361100002800 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 361100002801 C-terminal domain interface [polypeptide binding]; other site 361100002802 active site 361100002803 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 361100002804 active site 361100002805 N-terminal domain interface [polypeptide binding]; other site 361100002806 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 361100002807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100002808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100002809 Protein of unknown function (DUF4026); Region: DUF4026; pfam13218 361100002810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 361100002811 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 361100002812 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 361100002813 generic binding surface II; other site 361100002814 generic binding surface I; other site 361100002815 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 361100002816 putative active site [active] 361100002817 putative catalytic site [active] 361100002818 putative Mg binding site IVb [ion binding]; other site 361100002819 putative phosphate binding site [ion binding]; other site 361100002820 putative DNA binding site [nucleotide binding]; other site 361100002821 putative Mg binding site IVa [ion binding]; other site 361100002822 Helix-turn-helix domains; Region: HTH; cl00088 361100002823 Predicted membrane protein [Function unknown]; Region: COG1511 361100002824 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 361100002825 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 361100002826 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 361100002827 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 361100002828 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 361100002829 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 361100002830 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100002831 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 361100002832 DinB superfamily; Region: DinB_2; pfam12867 361100002833 Predicted transcriptional regulator [Transcription]; Region: COG2378 361100002834 Helix-turn-helix domains; Region: HTH; cl00088 361100002835 WYL domain; Region: WYL; cl14852 361100002836 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100002837 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100002838 DNA binding site [nucleotide binding] 361100002839 domain linker motif; other site 361100002840 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 361100002841 putative dimerization interface [polypeptide binding]; other site 361100002842 putative ligand binding site [chemical binding]; other site 361100002843 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100002844 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 361100002845 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 361100002846 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 361100002847 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 361100002848 AMP-binding enzyme; Region: AMP-binding; cl15778 361100002849 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100002850 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100002851 heme-binding site [chemical binding]; other site 361100002852 S-layer homology domain; Region: SLH; pfam00395 361100002853 S-layer homology domain; Region: SLH; pfam00395 361100002854 S-layer homology domain; Region: SLH; pfam00395 361100002855 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 361100002856 RHS Repeat; Region: RHS_repeat; cl11982 361100002857 RHS Repeat; Region: RHS_repeat; cl11982 361100002858 RHS protein; Region: RHS; pfam03527 361100002859 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 361100002860 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 361100002861 RHS Repeat; Region: RHS_repeat; cl11982 361100002862 RHS protein; Region: RHS; pfam03527 361100002863 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 361100002864 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 361100002865 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 361100002866 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 361100002867 Helix-turn-helix domains; Region: HTH; cl00088 361100002868 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 361100002869 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100002870 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 361100002871 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100002872 putative active site [active] 361100002873 putative metal binding site [ion binding]; other site 361100002874 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100002875 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100002876 Putative zinc-finger; Region: zf-HC2; cl15806 361100002877 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 361100002878 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 361100002879 RNA polymerase sigma factor; Provisional; Region: PRK12541 361100002880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100002881 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100002882 DNA binding residues [nucleotide binding] 361100002883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100002884 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100002885 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100002886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100002887 active site 361100002888 metal binding site [ion binding]; metal-binding site 361100002889 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100002890 dimer interface [polypeptide binding]; other site 361100002891 phosphorylation site [posttranslational modification] 361100002892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100002893 ATP binding site [chemical binding]; other site 361100002894 Mg2+ binding site [ion binding]; other site 361100002895 G-X-G motif; other site 361100002896 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100002897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100002898 active site 361100002899 phosphorylation site [posttranslational modification] 361100002900 intermolecular recognition site; other site 361100002901 dimerization interface [polypeptide binding]; other site 361100002902 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100002903 DNA binding site [nucleotide binding] 361100002904 CAAX protease self-immunity; Region: Abi; cl00558 361100002905 Peptidase family M48; Region: Peptidase_M48; cl12018 361100002906 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100002907 EamA-like transporter family; Region: EamA; cl01037 361100002908 EamA-like transporter family; Region: EamA; cl01037 361100002909 S-layer homology domain; Region: SLH; pfam00395 361100002910 S-layer homology domain; Region: SLH; pfam00395 361100002911 S-layer homology domain; Region: SLH; pfam00395 361100002912 S-layer homology domain; Region: SLH; pfam00395 361100002913 S-layer homology domain; Region: SLH; pfam00395 361100002914 S-layer homology domain; Region: SLH; pfam00395 361100002915 S-layer homology domain; Region: SLH; pfam00395 361100002916 S-layer homology domain; Region: SLH; pfam00395 361100002917 S-layer homology domain; Region: SLH; pfam00395 361100002918 malate synthase A; Region: malate_syn_A; TIGR01344 361100002919 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 361100002920 active site 361100002921 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 361100002922 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 361100002923 tetramer interface [polypeptide binding]; other site 361100002924 active site 361100002925 Mg2+/Mn2+ binding site [ion binding]; other site 361100002926 Phosphotransferase enzyme family; Region: APH; pfam01636 361100002927 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 361100002928 active site 361100002929 substrate binding site [chemical binding]; other site 361100002930 ATP binding site [chemical binding]; other site 361100002931 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100002932 DNA-binding site [nucleotide binding]; DNA binding site 361100002933 RNA-binding motif; other site 361100002934 ComK protein; Region: ComK; cl11560 361100002935 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 361100002936 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 361100002937 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100002938 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 361100002939 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100002940 Catalytic site [active] 361100002941 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100002942 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 361100002943 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 361100002944 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 361100002945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100002946 Family description; Region: UvrD_C_2; cl15862 361100002947 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 361100002948 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 361100002949 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 361100002950 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 361100002951 Spore germination protein GerPC; Region: GerPC; pfam10737 361100002952 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 361100002953 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 361100002954 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 361100002955 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 361100002956 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 361100002957 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100002958 inhibitor-cofactor binding pocket; inhibition site 361100002959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100002960 catalytic residue [active] 361100002961 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 361100002962 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 361100002963 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 361100002964 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 361100002965 dimer interface [polypeptide binding]; other site 361100002966 active site 361100002967 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 361100002968 Ligand Binding Site [chemical binding]; other site 361100002969 Molecular Tunnel; other site 361100002970 ferrochelatase; Provisional; Region: PRK12435 361100002971 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 361100002972 C-terminal domain interface [polypeptide binding]; other site 361100002973 active site 361100002974 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 361100002975 active site 361100002976 N-terminal domain interface [polypeptide binding]; other site 361100002977 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 361100002978 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 361100002979 tetramer interface [polypeptide binding]; other site 361100002980 heme binding pocket [chemical binding]; other site 361100002981 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 361100002982 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 361100002983 active site 361100002984 catalytic site [active] 361100002985 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100002986 non-specific DNA binding site [nucleotide binding]; other site 361100002987 salt bridge; other site 361100002988 sequence-specific DNA binding site [nucleotide binding]; other site 361100002989 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100002990 Protein of unknown function (DUF520); Region: DUF520; cl00723 361100002991 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 361100002992 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 361100002993 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 361100002994 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 361100002995 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 361100002996 RHS Repeat; Region: RHS_repeat; cl11982 361100002997 RHS Repeat; Region: RHS_repeat; cl11982 361100002998 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 361100002999 potential frameshift: common BLAST hit: gi|217958675|ref|YP_002337223.1| wall-associated protein 361100003000 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 361100003001 RNA pol II promoter Fmp27 protein domain; Region: Fmp27_WPPW; pfam10359 361100003002 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 361100003003 PPIC-type PPIASE domain; Region: Rotamase; cl08278 361100003004 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100003005 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100003006 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100003007 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100003008 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 361100003009 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100003010 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100003011 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100003012 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 361100003013 Clp amino terminal domain; Region: Clp_N; pfam02861 361100003014 Clp amino terminal domain; Region: Clp_N; pfam02861 361100003015 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100003016 Walker A motif; other site 361100003017 ATP binding site [chemical binding]; other site 361100003018 Walker B motif; other site 361100003019 arginine finger; other site 361100003020 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100003021 Walker A motif; other site 361100003022 ATP binding site [chemical binding]; other site 361100003023 Walker B motif; other site 361100003024 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 361100003025 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 361100003026 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 361100003027 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 361100003028 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 361100003029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003030 NAD(P) binding site [chemical binding]; other site 361100003031 active site 361100003032 ComZ; Region: ComZ; pfam10815 361100003033 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 361100003034 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 361100003035 dimer interface [polypeptide binding]; other site 361100003036 active site 361100003037 CoA binding pocket [chemical binding]; other site 361100003038 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 361100003039 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 361100003040 dimer interface [polypeptide binding]; other site 361100003041 active site 361100003042 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 361100003043 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 361100003044 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 361100003045 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 361100003046 active site 361100003047 HIGH motif; other site 361100003048 dimer interface [polypeptide binding]; other site 361100003049 KMSKS motif; other site 361100003050 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 361100003051 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100003052 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100003053 peptide binding site [polypeptide binding]; other site 361100003054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 361100003055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003056 dimer interface [polypeptide binding]; other site 361100003057 conserved gate region; other site 361100003058 putative PBP binding loops; other site 361100003059 ABC-ATPase subunit interface; other site 361100003060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100003061 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 361100003062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003063 dimer interface [polypeptide binding]; other site 361100003064 conserved gate region; other site 361100003065 putative PBP binding loops; other site 361100003066 ABC-ATPase subunit interface; other site 361100003067 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 361100003068 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100003069 Walker A/P-loop; other site 361100003070 ATP binding site [chemical binding]; other site 361100003071 Q-loop/lid; other site 361100003072 ABC transporter signature motif; other site 361100003073 Walker B; other site 361100003074 D-loop; other site 361100003075 H-loop/switch region; other site 361100003076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100003077 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 361100003078 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 361100003079 Walker A/P-loop; other site 361100003080 ATP binding site [chemical binding]; other site 361100003081 Q-loop/lid; other site 361100003082 ABC transporter signature motif; other site 361100003083 Walker B; other site 361100003084 D-loop; other site 361100003085 H-loop/switch region; other site 361100003086 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 361100003087 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 361100003088 MatE; Region: MatE; cl10513 361100003089 MatE; Region: MatE; cl10513 361100003090 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100003091 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100003092 peptide binding site [polypeptide binding]; other site 361100003093 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 361100003094 ArsC family; Region: ArsC; pfam03960 361100003095 putative catalytic residues [active] 361100003096 thiol/disulfide switch; other site 361100003097 Integral membrane protein TerC family; Region: TerC; cl10468 361100003098 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 361100003099 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 361100003100 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 361100003101 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100003102 putative active site [active] 361100003103 catalytic site [active] 361100003104 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100003105 putative active site [active] 361100003106 catalytic site [active] 361100003107 Competence protein CoiA-like family; Region: CoiA; cl11541 361100003108 oligoendopeptidase F; Region: pepF; TIGR00181 361100003109 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 361100003110 active site 361100003111 Zn binding site [ion binding]; other site 361100003112 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 361100003113 Thioredoxin; Region: Thioredoxin_5; pfam13743 361100003114 catalytic residues [active] 361100003115 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 361100003116 apolar tunnel; other site 361100003117 heme binding site [chemical binding]; other site 361100003118 dimerization interface [polypeptide binding]; other site 361100003119 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 361100003120 putative active site [active] 361100003121 putative metal binding residues [ion binding]; other site 361100003122 signature motif; other site 361100003123 putative triphosphate binding site [ion binding]; other site 361100003124 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 361100003125 synthetase active site [active] 361100003126 NTP binding site [chemical binding]; other site 361100003127 metal binding site [ion binding]; metal-binding site 361100003128 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 361100003129 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 361100003130 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 361100003131 active site 361100003132 Hep_Hag; Region: Hep_Hag; pfam05658 361100003133 Peptidase_G2, IMC autoproteolytic cleavage domain; Region: Peptidase_G2; pfam11962 361100003134 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 361100003135 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 361100003136 active site 361100003137 metal binding site [ion binding]; metal-binding site 361100003138 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 361100003139 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 361100003140 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100003141 active site 361100003142 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003143 S-adenosylmethionine binding site [chemical binding]; other site 361100003144 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100003145 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 361100003146 putative metal binding site; other site 361100003147 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100003148 binding surface 361100003149 TPR motif; other site 361100003150 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003151 S-adenosylmethionine binding site [chemical binding]; other site 361100003152 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 361100003153 catalytic residues [active] 361100003154 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 361100003155 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 361100003156 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100003157 active site 361100003158 Cupin domain; Region: Cupin_2; cl09118 361100003159 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 361100003160 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 361100003161 NAD binding site [chemical binding]; other site 361100003162 substrate binding site [chemical binding]; other site 361100003163 homodimer interface [polypeptide binding]; other site 361100003164 active site 361100003165 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 361100003166 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 361100003167 NADP binding site [chemical binding]; other site 361100003168 active site 361100003169 putative substrate binding site [chemical binding]; other site 361100003170 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 361100003171 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 361100003172 NAD binding site [chemical binding]; other site 361100003173 homotetramer interface [polypeptide binding]; other site 361100003174 homodimer interface [polypeptide binding]; other site 361100003175 substrate binding site [chemical binding]; other site 361100003176 active site 361100003177 Spore coat protein CotO; Region: Spore_coat_CotO; pfam14153 361100003178 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 361100003179 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 361100003180 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 361100003181 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 361100003182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100003183 Family description; Region: UvrD_C_2; cl15862 361100003184 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100003185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100003186 Coenzyme A binding pocket [chemical binding]; other site 361100003187 hypothetical protein; Provisional; Region: PRK13679 361100003188 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 361100003189 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100003190 Putative esterase; Region: Esterase; pfam00756 361100003191 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100003192 EamA-like transporter family; Region: EamA; cl01037 361100003193 EamA-like transporter family; Region: EamA; cl01037 361100003194 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 361100003195 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 361100003196 Pectate lyase; Region: Pectate_lyase; pfam03211 361100003197 Sodium:solute symporter family; Region: SSF; cl00456 361100003198 anthranilate synthase component I; Provisional; Region: PRK13570 361100003199 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 361100003200 chorismate binding enzyme; Region: Chorismate_bind; cl10555 361100003201 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 361100003202 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 361100003203 glutamine binding [chemical binding]; other site 361100003204 catalytic triad [active] 361100003205 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 361100003206 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 361100003207 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 361100003208 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 361100003209 active site 361100003210 ribulose/triose binding site [chemical binding]; other site 361100003211 phosphate binding site [ion binding]; other site 361100003212 substrate (anthranilate) binding pocket [chemical binding]; other site 361100003213 product (indole) binding pocket [chemical binding]; other site 361100003214 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 361100003215 active site 361100003216 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 361100003217 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 361100003218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100003219 catalytic residue [active] 361100003220 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 361100003221 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 361100003222 substrate binding site [chemical binding]; other site 361100003223 active site 361100003224 catalytic residues [active] 361100003225 heterodimer interface [polypeptide binding]; other site 361100003226 Protein of unknown function (DUF4029); Region: DUF4029; pfam13221 361100003227 L-lactate permease; Region: Lactate_perm; cl00701 361100003228 Uncharacterized conserved protein [Function unknown]; Region: COG5634 361100003229 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 361100003230 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100003231 catalytic residues [active] 361100003232 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 361100003233 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 361100003234 YARHG domain; Region: YARHG; pfam13308 361100003235 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 361100003236 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100003237 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 361100003238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100003239 Coenzyme A binding pocket [chemical binding]; other site 361100003240 Protein of unknown function (DUF3908); Region: DUF3908; pfam13048 361100003241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003242 S-adenosylmethionine binding site [chemical binding]; other site 361100003243 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 361100003244 NADPH bind site [chemical binding]; other site 361100003245 putative FMN binding site [chemical binding]; other site 361100003246 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 361100003247 putative FMN binding site [chemical binding]; other site 361100003248 NADPH bind site [chemical binding]; other site 361100003249 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 361100003250 YcaO-like family; Region: YcaO; pfam02624 361100003251 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 361100003252 putative thiazole-containing bacteriocin maturation protein; Region: ocin_ThiF_like; TIGR03693 361100003253 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 361100003254 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 361100003255 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 361100003256 E3 interaction surface; other site 361100003257 lipoyl attachment site [posttranslational modification]; other site 361100003258 e3 binding domain; Region: E3_binding; pfam02817 361100003259 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 361100003260 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 361100003261 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 361100003262 TPP-binding site [chemical binding]; other site 361100003263 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 361100003264 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100003265 salt bridge; other site 361100003266 non-specific DNA binding site [nucleotide binding]; other site 361100003267 sequence-specific DNA binding site [nucleotide binding]; other site 361100003268 Domain of unknown function (DUF3976); Region: DUF3976; pfam13121 361100003269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100003270 Probable transposase; Region: OrfB_IS605; pfam01385 361100003271 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100003272 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 361100003273 active site 361100003274 Int/Topo IB signature motif; other site 361100003275 catalytic residues [active] 361100003276 DNA binding site [nucleotide binding] 361100003277 Protein of unknown function (DUF1411); Region: DUF1411; pfam07199 361100003278 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100003279 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100003280 catalytic residues [active] 361100003281 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100003282 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100003283 Synaptic Site I dimer interface [polypeptide binding]; other site 361100003284 DNA binding site [nucleotide binding] 361100003285 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 361100003286 integrase; Provisional; Region: int; PHA02601 361100003287 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 361100003288 Int/Topo IB signature motif; other site 361100003289 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 361100003290 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003291 S-adenosylmethionine binding site [chemical binding]; other site 361100003292 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100003293 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 361100003294 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100003295 Catalytic site [active] 361100003296 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 361100003297 Domain of unknown function (DUF4047); Region: DUF4047; pfam13256 361100003298 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 361100003299 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100003300 non-specific DNA binding site [nucleotide binding]; other site 361100003301 salt bridge; other site 361100003302 sequence-specific DNA binding site [nucleotide binding]; other site 361100003303 Anti-repressor SinI; Region: SinI; pfam08671 361100003304 Anti-repressor SinI; Region: SinI; pfam08671 361100003305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 361100003306 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 361100003307 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 361100003308 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 361100003309 NAD(P) binding site [chemical binding]; other site 361100003310 catalytic residues [active] 361100003311 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 361100003312 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 361100003313 Walker A/P-loop; other site 361100003314 ATP binding site [chemical binding]; other site 361100003315 Q-loop/lid; other site 361100003316 ABC transporter signature motif; other site 361100003317 Walker B; other site 361100003318 D-loop; other site 361100003319 H-loop/switch region; other site 361100003320 TOBE domain; Region: TOBE_2; cl01440 361100003321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003322 dimer interface [polypeptide binding]; other site 361100003323 conserved gate region; other site 361100003324 putative PBP binding loops; other site 361100003325 ABC-ATPase subunit interface; other site 361100003326 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 361100003327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003328 dimer interface [polypeptide binding]; other site 361100003329 conserved gate region; other site 361100003330 putative PBP binding loops; other site 361100003331 ABC-ATPase subunit interface; other site 361100003332 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 361100003333 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100003334 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 361100003335 active site 361100003336 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 361100003337 Protein export membrane protein; Region: SecD_SecF; cl14618 361100003338 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100003339 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 361100003340 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 361100003341 active site 361100003342 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 361100003343 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 361100003344 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 361100003345 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 361100003346 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 361100003347 Cysteine-rich domain; Region: CCG; pfam02754 361100003348 Cysteine-rich domain; Region: CCG; pfam02754 361100003349 FAD binding domain; Region: FAD_binding_4; pfam01565 361100003350 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 361100003351 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 361100003352 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 361100003353 Helix-turn-helix domains; Region: HTH; cl00088 361100003354 Uncharacterized conserved protein [Function unknown]; Region: COG3391 361100003355 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 361100003356 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 361100003357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100003358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100003359 active site 361100003360 phosphorylation site [posttranslational modification] 361100003361 intermolecular recognition site; other site 361100003362 dimerization interface [polypeptide binding]; other site 361100003363 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100003364 DNA binding site [nucleotide binding] 361100003365 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100003366 dimerization interface [polypeptide binding]; other site 361100003367 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003368 dimer interface [polypeptide binding]; other site 361100003369 phosphorylation site [posttranslational modification] 361100003370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003371 ATP binding site [chemical binding]; other site 361100003372 Mg2+ binding site [ion binding]; other site 361100003373 G-X-G motif; other site 361100003374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100003375 DNA-binding site [nucleotide binding]; DNA binding site 361100003376 FCD domain; Region: FCD; cl11656 361100003377 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 361100003378 Cysteine-rich domain; Region: CCG; pfam02754 361100003379 Cysteine-rich domain; Region: CCG; pfam02754 361100003380 iron-sulfur cluster-binding protein; Region: TIGR00273 361100003381 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 361100003382 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 361100003383 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 361100003384 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 361100003385 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 361100003386 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 361100003387 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 361100003388 Integral membrane protein TerC family; Region: TerC; cl10468 361100003389 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 361100003390 Cation transport protein; Region: TrkH; cl10514 361100003391 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100003392 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 361100003393 dimer interaction site [polypeptide binding]; other site 361100003394 substrate-binding tunnel; other site 361100003395 active site 361100003396 catalytic site [active] 361100003397 substrate binding site [chemical binding]; other site 361100003398 Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); Region: PhaP_Bmeg; cl09820 361100003399 Helix-turn-helix domains; Region: HTH; cl00088 361100003400 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 361100003401 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 361100003402 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 361100003403 NAD(P) binding site [chemical binding]; other site 361100003404 homotetramer interface [polypeptide binding]; other site 361100003405 homodimer interface [polypeptide binding]; other site 361100003406 active site 361100003407 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 361100003408 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 361100003409 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 361100003410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003411 FAD dependent oxidoreductase; Region: DAO; pfam01266 361100003412 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 361100003413 Cation transport protein; Region: TrkH; cl10514 361100003414 Protein of unknown function (DUF3905); Region: DUF3905; pfam13045 361100003415 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100003416 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 361100003417 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 361100003418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100003419 Walker A/P-loop; other site 361100003420 ATP binding site [chemical binding]; other site 361100003421 Q-loop/lid; other site 361100003422 ABC transporter signature motif; other site 361100003423 Walker B; other site 361100003424 D-loop; other site 361100003425 H-loop/switch region; other site 361100003426 TOBE domain; Region: TOBE_2; cl01440 361100003427 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 361100003428 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003429 dimer interface [polypeptide binding]; other site 361100003430 conserved gate region; other site 361100003431 putative PBP binding loops; other site 361100003432 ABC-ATPase subunit interface; other site 361100003433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100003434 dimer interface [polypeptide binding]; other site 361100003435 conserved gate region; other site 361100003436 putative PBP binding loops; other site 361100003437 ABC-ATPase subunit interface; other site 361100003438 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 361100003439 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100003440 motif II; other site 361100003441 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100003442 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100003443 catalytic residue [active] 361100003444 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 361100003445 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 361100003446 Helix-turn-helix domains; Region: HTH; cl00088 361100003447 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100003448 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100003449 heme-binding site [chemical binding]; other site 361100003450 Leucine rich repeat; Region: LRR_8; pfam13855 361100003451 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 361100003452 Substrate binding site [chemical binding]; other site 361100003453 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 361100003454 Leucine rich repeat; Region: LRR_8; pfam13855 361100003455 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 361100003456 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 361100003457 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 361100003458 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 361100003459 S-layer homology domain; Region: SLH; pfam00395 361100003460 S-layer homology domain; Region: SLH; pfam00395 361100003461 S-layer homology domain; Region: SLH; pfam00395 361100003462 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 361100003463 intersubunit interface [polypeptide binding]; other site 361100003464 active site 361100003465 Zn2+ binding site [ion binding]; other site 361100003466 FOG: CBS domain [General function prediction only]; Region: COG0517 361100003467 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 361100003468 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 361100003469 NodB motif; other site 361100003470 putative active site [active] 361100003471 putative catalytic site [active] 361100003472 Zn binding site [ion binding]; other site 361100003473 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 361100003474 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 361100003475 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003476 dimer interface [polypeptide binding]; other site 361100003477 phosphorylation site [posttranslational modification] 361100003478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003479 ATP binding site [chemical binding]; other site 361100003480 Mg2+ binding site [ion binding]; other site 361100003481 G-X-G motif; other site 361100003482 Helix-turn-helix domains; Region: HTH; cl00088 361100003483 transcriptional regulator SlyA; Provisional; Region: PRK03573 361100003484 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 361100003485 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 361100003486 active site 361100003487 Zn binding site [ion binding]; other site 361100003488 DinB superfamily; Region: DinB_2; pfam12867 361100003489 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100003490 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003491 dimer interface [polypeptide binding]; other site 361100003492 phosphorylation site [posttranslational modification] 361100003493 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003494 ATP binding site [chemical binding]; other site 361100003495 Mg2+ binding site [ion binding]; other site 361100003496 G-X-G motif; other site 361100003497 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 361100003498 Ligand Binding Site [chemical binding]; other site 361100003499 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 361100003500 active site 361100003501 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 361100003502 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 361100003503 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 361100003504 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100003505 Coenzyme A binding pocket [chemical binding]; other site 361100003506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 361100003507 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100003508 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 361100003509 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 361100003510 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 361100003511 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 361100003512 dimer interface [polypeptide binding]; other site 361100003513 putative radical transfer pathway; other site 361100003514 diiron center [ion binding]; other site 361100003515 tyrosyl radical; other site 361100003516 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 361100003517 catalytic site [active] 361100003518 metal binding site [ion binding]; metal-binding site 361100003519 Helix-turn-helix domains; Region: HTH; cl00088 361100003520 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 361100003521 Predicted transcriptional regulators [Transcription]; Region: COG1725 361100003522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100003523 DNA-binding site [nucleotide binding]; DNA binding site 361100003524 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 361100003525 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100003526 Walker A/P-loop; other site 361100003527 ATP binding site [chemical binding]; other site 361100003528 Q-loop/lid; other site 361100003529 ABC transporter signature motif; other site 361100003530 Walker B; other site 361100003531 D-loop; other site 361100003532 H-loop/switch region; other site 361100003533 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100003534 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 361100003535 Walker A/P-loop; other site 361100003536 ATP binding site [chemical binding]; other site 361100003537 Q-loop/lid; other site 361100003538 ABC transporter signature motif; other site 361100003539 Walker B; other site 361100003540 D-loop; other site 361100003541 H-loop/switch region; other site 361100003542 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100003543 CAAX protease self-immunity; Region: Abi; cl00558 361100003544 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 361100003545 Protein of unknown function (DUF3913); Region: DUF3913; pfam13052 361100003546 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 361100003547 Helix-turn-helix domains; Region: HTH; cl00088 361100003548 Uncharacterized conserved protein [Function unknown]; Region: COG2128 361100003549 Isochorismatase family; Region: Isochorismatase; pfam00857 361100003550 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100003551 catalytic triad [active] 361100003552 conserved cis-peptide bond; other site 361100003553 SseB protein; Region: SseB; cl06279 361100003554 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 361100003555 dimer interface [polypeptide binding]; other site 361100003556 catalytic triad [active] 361100003557 Nitronate monooxygenase; Region: NMO; pfam03060 361100003558 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 361100003559 FMN binding site [chemical binding]; other site 361100003560 substrate binding site [chemical binding]; other site 361100003561 putative catalytic residue [active] 361100003562 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 361100003563 DltD N-terminal region; Region: DltD_N; pfam04915 361100003564 DltD central region; Region: DltD_M; pfam04918 361100003565 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 361100003566 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100003567 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 361100003568 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 361100003569 AMP-binding enzyme; Region: AMP-binding; cl15778 361100003570 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 361100003571 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 361100003572 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 361100003573 metal binding site [ion binding]; metal-binding site 361100003574 dimer interface [polypeptide binding]; other site 361100003575 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100003576 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100003577 Phosphotransferase enzyme family; Region: APH; pfam01636 361100003578 active site 361100003579 substrate binding site [chemical binding]; other site 361100003580 ATP binding site [chemical binding]; other site 361100003581 multidrug efflux protein; Reviewed; Region: PRK01766 361100003582 MatE; Region: MatE; cl10513 361100003583 MatE; Region: MatE; cl10513 361100003584 Bacitracin resistance protein BacA; Region: BacA; cl00858 361100003585 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 361100003586 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100003587 Helix-turn-helix domains; Region: HTH; cl00088 361100003588 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 361100003589 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100003590 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 361100003591 Cation transport protein; Region: TrkH; cl10514 361100003592 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 361100003593 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 361100003594 Protein of unknown function (DUF3911); Region: DUF3911; pfam13050 361100003595 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 361100003596 homodimer interface [polypeptide binding]; other site 361100003597 substrate-cofactor binding pocket; other site 361100003598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100003599 catalytic residue [active] 361100003600 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 361100003601 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 361100003602 PYR/PP interface [polypeptide binding]; other site 361100003603 dimer interface [polypeptide binding]; other site 361100003604 TPP binding site [chemical binding]; other site 361100003605 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 361100003606 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 361100003607 TPP-binding site [chemical binding]; other site 361100003608 dimer interface [polypeptide binding]; other site 361100003609 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 361100003610 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 361100003611 putative valine binding site [chemical binding]; other site 361100003612 dimer interface [polypeptide binding]; other site 361100003613 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 361100003614 ketol-acid reductoisomerase; Provisional; Region: PRK05479 361100003615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003616 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 361100003617 2-isopropylmalate synthase; Validated; Region: PRK00915 361100003618 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 361100003619 active site 361100003620 catalytic residues [active] 361100003621 metal binding site [ion binding]; metal-binding site 361100003622 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 361100003623 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 361100003624 tartrate dehydrogenase; Provisional; Region: PRK08194 361100003625 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 361100003626 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 361100003627 substrate binding site [chemical binding]; other site 361100003628 ligand binding site [chemical binding]; other site 361100003629 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 361100003630 substrate binding site [chemical binding]; other site 361100003631 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 361100003632 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 361100003633 dimer interface [polypeptide binding]; other site 361100003634 motif 1; other site 361100003635 active site 361100003636 motif 2; other site 361100003637 motif 3; other site 361100003638 ATP phosphoribosyltransferase; Region: HisG; cl15266 361100003639 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 361100003640 histidinol dehydrogenase; Region: hisD; TIGR00069 361100003641 NAD binding site [chemical binding]; other site 361100003642 dimerization interface [polypeptide binding]; other site 361100003643 product binding site; other site 361100003644 substrate binding site [chemical binding]; other site 361100003645 zinc binding site [ion binding]; other site 361100003646 catalytic residues [active] 361100003647 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 361100003648 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 361100003649 putative active site pocket [active] 361100003650 4-fold oligomerization interface [polypeptide binding]; other site 361100003651 metal binding residues [ion binding]; metal-binding site 361100003652 3-fold/trimer interface [polypeptide binding]; other site 361100003653 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 361100003654 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 361100003655 putative active site [active] 361100003656 oxyanion strand; other site 361100003657 catalytic triad [active] 361100003658 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 361100003659 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 361100003660 catalytic residues [active] 361100003661 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 361100003662 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 361100003663 substrate binding site [chemical binding]; other site 361100003664 glutamase interaction surface [polypeptide binding]; other site 361100003665 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 361100003666 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100003667 histidinol-phosphatase; Validated; Region: PRK06740 361100003668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003669 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 361100003670 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 361100003671 Sulfatase; Region: Sulfatase; cl10460 361100003672 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 361100003673 diaminopimelate decarboxylase; Region: lysA; TIGR01048 361100003674 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 361100003675 active site 361100003676 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 361100003677 substrate binding site [chemical binding]; other site 361100003678 catalytic residues [active] 361100003679 dimer interface [polypeptide binding]; other site 361100003680 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 361100003681 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 361100003682 Active Sites [active] 361100003683 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 361100003684 ATP-sulfurylase; Region: ATPS; cd00517 361100003685 active site 361100003686 HXXH motif; other site 361100003687 flexible loop; other site 361100003688 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 361100003689 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 361100003690 ligand-binding site [chemical binding]; other site 361100003691 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 361100003692 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 361100003693 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 361100003694 Protein of unknown function (DUF3906); Region: DUF3906; pfam13046 361100003695 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 361100003696 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 361100003697 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 361100003698 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 361100003699 putative active site [active] 361100003700 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 361100003701 putative active site [active] 361100003702 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 361100003703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003704 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 361100003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 361100003706 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100003707 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 361100003708 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100003709 Protein of unknown function (DUF402); Region: DUF402; cl00979 361100003710 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 361100003711 PspA/IM30 family; Region: PspA_IM30; pfam04012 361100003712 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 361100003713 Histidine kinase; Region: HisKA_3; pfam07730 361100003714 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003715 ATP binding site [chemical binding]; other site 361100003716 Mg2+ binding site [ion binding]; other site 361100003717 G-X-G motif; other site 361100003718 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100003719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100003720 active site 361100003721 phosphorylation site [posttranslational modification] 361100003722 intermolecular recognition site; other site 361100003723 dimerization interface [polypeptide binding]; other site 361100003724 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100003725 DNA binding residues [nucleotide binding] 361100003726 dimerization interface [polypeptide binding]; other site 361100003727 Protein of unknown function (DUF3992); Region: DUF3922; pfam13059 361100003728 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100003729 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 361100003730 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003731 S-adenosylmethionine binding site [chemical binding]; other site 361100003732 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 361100003733 active site 361100003734 putative substrate binding region [chemical binding]; other site 361100003735 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 361100003736 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 361100003737 heme-binding site [chemical binding]; other site 361100003738 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 361100003739 FAD binding pocket [chemical binding]; other site 361100003740 FAD binding motif [chemical binding]; other site 361100003741 phosphate binding motif [ion binding]; other site 361100003742 beta-alpha-beta structure motif; other site 361100003743 NAD binding pocket [chemical binding]; other site 361100003744 Heme binding pocket [chemical binding]; other site 361100003745 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 361100003746 ligand binding site [chemical binding]; other site 361100003747 flexible hinge region; other site 361100003748 Helix-turn-helix domains; Region: HTH; cl00088 361100003749 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 361100003750 Phosphate transporter family; Region: PHO4; cl00396 361100003751 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 361100003752 Transglycosylase; Region: Transgly; cl07896 361100003753 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100003754 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100003755 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 361100003756 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100003757 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 361100003758 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003759 dimer interface [polypeptide binding]; other site 361100003760 phosphorylation site [posttranslational modification] 361100003761 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003762 ATP binding site [chemical binding]; other site 361100003763 Mg2+ binding site [ion binding]; other site 361100003764 G-X-G motif; other site 361100003765 Protein of unknown function DUF72; Region: DUF72; cl00777 361100003766 Protein of unknown function (DUF3924); Region: DUF3924; pfam13062 361100003767 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100003768 active site 361100003769 DNA binding site [nucleotide binding] 361100003770 Int/Topo IB signature motif; other site 361100003771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 361100003772 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100003773 dimerization interface [polypeptide binding]; other site 361100003774 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003775 dimer interface [polypeptide binding]; other site 361100003776 phosphorylation site [posttranslational modification] 361100003777 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003778 ATP binding site [chemical binding]; other site 361100003779 Mg2+ binding site [ion binding]; other site 361100003780 G-X-G motif; other site 361100003781 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 361100003782 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 361100003783 Predicted integral membrane protein [Function unknown]; Region: COG0392 361100003784 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 361100003785 Uncharacterized conserved protein [Function unknown]; Region: COG2898 361100003786 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 361100003787 Protein of unknown function (DUF3907); Region: DUF3907; pfam13047 361100003788 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 361100003789 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 361100003790 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 361100003791 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100003792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100003793 Nucleoside recognition; Region: Gate; cl00486 361100003794 Nucleoside recognition; Region: Gate; cl00486 361100003795 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 361100003796 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100003797 RNA binding surface [nucleotide binding]; other site 361100003798 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 361100003799 active site 361100003800 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 361100003801 catalytic residues [active] 361100003802 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 361100003803 ResB-like family; Region: ResB; pfam05140 361100003804 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 361100003805 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 361100003806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100003807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100003808 active site 361100003809 phosphorylation site [posttranslational modification] 361100003810 intermolecular recognition site; other site 361100003811 dimerization interface [polypeptide binding]; other site 361100003812 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100003813 DNA binding site [nucleotide binding] 361100003814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 361100003815 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100003816 dimerization interface [polypeptide binding]; other site 361100003817 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100003818 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100003819 dimer interface [polypeptide binding]; other site 361100003820 phosphorylation site [posttranslational modification] 361100003821 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100003822 ATP binding site [chemical binding]; other site 361100003823 Mg2+ binding site [ion binding]; other site 361100003824 G-X-G motif; other site 361100003825 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 361100003826 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100003827 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100003828 putative peptidoglycan binding site; other site 361100003829 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100003830 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 361100003831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 361100003832 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100003833 putative Mg++ binding site [ion binding]; other site 361100003834 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100003835 nucleotide binding region [chemical binding]; other site 361100003836 ATP-binding site [chemical binding]; other site 361100003837 CAAX protease self-immunity; Region: Abi; cl00558 361100003838 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100003839 putative peptidoglycan binding site; other site 361100003840 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 361100003841 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100003842 putative active site [active] 361100003843 putative metal binding site [ion binding]; other site 361100003844 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100003845 B12 binding domain; Region: B12-binding_2; cl03653 361100003846 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 361100003847 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 361100003848 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 361100003849 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 361100003850 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 361100003851 NAD(P) binding site [chemical binding]; other site 361100003852 Domain of unknown function (DUF3961); Region: DUF3961; pfam13106 361100003853 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100003854 amidase catalytic site [active] 361100003855 Zn binding residues [ion binding]; other site 361100003856 substrate binding site [chemical binding]; other site 361100003857 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 361100003858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003859 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100003860 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 361100003861 active site 361100003862 homodimer interface [polypeptide binding]; other site 361100003863 homotetramer interface [polypeptide binding]; other site 361100003864 cytidylate kinase; Provisional; Region: cmk; PRK00023 361100003865 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 361100003866 CMP-binding site; other site 361100003867 The sites determining sugar specificity; other site 361100003868 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 361100003869 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 361100003870 RNA binding site [nucleotide binding]; other site 361100003871 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 361100003872 RNA binding site [nucleotide binding]; other site 361100003873 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 361100003874 RNA binding site [nucleotide binding]; other site 361100003875 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 361100003876 RNA binding site [nucleotide binding]; other site 361100003877 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 361100003878 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 361100003879 homotetramer interface [polypeptide binding]; other site 361100003880 FMN binding site [chemical binding]; other site 361100003881 homodimer contacts [polypeptide binding]; other site 361100003882 putative active site [active] 361100003883 putative substrate binding site [chemical binding]; other site 361100003884 YIEGIA protein; Region: YIEGIA; pfam14045 361100003885 GTP-binding protein Der; Reviewed; Region: PRK00093 361100003886 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 361100003887 G1 box; other site 361100003888 GTP/Mg2+ binding site [chemical binding]; other site 361100003889 Switch I region; other site 361100003890 G2 box; other site 361100003891 Switch II region; other site 361100003892 G3 box; other site 361100003893 G4 box; other site 361100003894 G5 box; other site 361100003895 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 361100003896 G1 box; other site 361100003897 GTP/Mg2+ binding site [chemical binding]; other site 361100003898 Switch I region; other site 361100003899 G2 box; other site 361100003900 G3 box; other site 361100003901 Switch II region; other site 361100003902 G4 box; other site 361100003903 G5 box; other site 361100003904 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 361100003905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003906 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 361100003907 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 361100003908 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 361100003909 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 361100003910 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 361100003911 IHF dimer interface [polypeptide binding]; other site 361100003912 IHF - DNA interface [nucleotide binding]; other site 361100003913 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 361100003914 homodecamer interface [polypeptide binding]; other site 361100003915 GTP cyclohydrolase I; Provisional; Region: PLN03044 361100003916 active site 361100003917 putative catalytic site residues [active] 361100003918 zinc binding site [ion binding]; other site 361100003919 GTP-CH-I/GFRP interaction surface; other site 361100003920 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 361100003921 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 361100003922 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100003923 S-adenosylmethionine binding site [chemical binding]; other site 361100003924 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 361100003925 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 361100003926 substrate binding pocket [chemical binding]; other site 361100003927 chain length determination region; other site 361100003928 substrate-Mg2+ binding site; other site 361100003929 catalytic residues [active] 361100003930 aspartate-rich region 1; other site 361100003931 active site lid residues [active] 361100003932 aspartate-rich region 2; other site 361100003933 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 361100003934 active site 361100003935 multimer interface [polypeptide binding]; other site 361100003936 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 361100003937 Tetramer interface [polypeptide binding]; other site 361100003938 active site 361100003939 FMN-binding site [chemical binding]; other site 361100003940 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 361100003941 active site 361100003942 dimer interface [polypeptide binding]; other site 361100003943 metal binding site [ion binding]; metal-binding site 361100003944 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 361100003945 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100003946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100003947 homodimer interface [polypeptide binding]; other site 361100003948 catalytic residue [active] 361100003949 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100003950 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100003951 binding surface 361100003952 TPR motif; other site 361100003953 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 361100003954 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100003955 binding surface 361100003956 TPR motif; other site 361100003957 Tetratricopeptide repeat; Region: TPR_16; pfam13432 361100003958 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100003959 binding surface 361100003960 TPR motif; other site 361100003961 hypothetical protein; Provisional; Region: PRK03636 361100003962 UPF0302 domain; Region: UPF0302; pfam08864 361100003963 IDEAL domain; Region: IDEAL; cl07452 361100003964 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 361100003965 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 361100003966 iron-sulfur cluster [ion binding]; other site 361100003967 [2Fe-2S] cluster binding site [ion binding]; other site 361100003968 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 361100003969 interchain domain interface [polypeptide binding]; other site 361100003970 intrachain domain interface; other site 361100003971 heme bH binding site [chemical binding]; other site 361100003972 Qi binding site; other site 361100003973 heme bL binding site [chemical binding]; other site 361100003974 Qo binding site; other site 361100003975 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 361100003976 interchain domain interface [polypeptide binding]; other site 361100003977 intrachain domain interface; other site 361100003978 Qi binding site; other site 361100003979 Qo binding site; other site 361100003980 Cytochrome c; Region: Cytochrom_C; cl11414 361100003981 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 361100003982 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 361100003983 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 361100003984 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 361100003985 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 361100003986 active site 361100003987 Fe-S cluster binding site [ion binding]; other site 361100003988 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100003989 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100003990 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100003991 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100003992 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100003993 dihydrodipicolinate reductase; Provisional; Region: PRK00048 361100003994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100003995 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 361100003996 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 361100003997 active site 361100003998 dimer interfaces [polypeptide binding]; other site 361100003999 catalytic residues [active] 361100004000 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 361100004001 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 361100004002 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 361100004003 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 361100004004 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 361100004005 active site 361100004006 NTP binding site [chemical binding]; other site 361100004007 metal binding triad [ion binding]; metal-binding site 361100004008 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 361100004009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100004010 Helix-turn-helix domains; Region: HTH; cl00088 361100004011 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 361100004012 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 361100004013 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 361100004014 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 361100004015 active site 361100004016 oligomerization interface [polypeptide binding]; other site 361100004017 metal binding site [ion binding]; metal-binding site 361100004018 pantoate--beta-alanine ligase; Region: panC; TIGR00018 361100004019 Pantoate-beta-alanine ligase; Region: PanC; cd00560 361100004020 active site 361100004021 ATP-binding site [chemical binding]; other site 361100004022 pantoate-binding site; other site 361100004023 HXXH motif; other site 361100004024 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 361100004025 tetramerization interface [polypeptide binding]; other site 361100004026 active site 361100004027 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 361100004028 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 361100004029 active site 361100004030 catalytic site [active] 361100004031 substrate binding site [chemical binding]; other site 361100004032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004034 putative Mg++ binding site [ion binding]; other site 361100004035 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004036 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 361100004037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 361100004038 aspartate aminotransferase; Provisional; Region: PRK05764 361100004039 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100004040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004041 homodimer interface [polypeptide binding]; other site 361100004042 catalytic residue [active] 361100004043 Helix-turn-helix domains; Region: HTH; cl00088 361100004044 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 361100004045 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 361100004046 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 361100004047 minor groove reading motif; other site 361100004048 helix-hairpin-helix signature motif; other site 361100004049 substrate binding pocket [chemical binding]; other site 361100004050 active site 361100004051 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 361100004052 Transglycosylase; Region: Transgly; cl07896 361100004053 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100004054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100004055 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 361100004056 Interdomain contacts; other site 361100004057 Cytokine receptor motif; other site 361100004058 Recombination protein U; Region: RecU; cl01314 361100004059 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 361100004060 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 361100004061 YppF-like protein; Region: YppF; pfam14178 361100004062 YppG-like protein; Region: YppG; pfam14179 361100004063 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 361100004064 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 361100004065 cell division protein GpsB; Provisional; Region: PRK14127 361100004066 DivIVA domain; Region: DivI1A_domain; TIGR03544 361100004067 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 361100004068 THUMP domain; Region: THUMP; cl12076 361100004069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100004070 Protein of unknown function (DUF3921); Region: DUF3921; pfam13060 361100004071 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 361100004072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004074 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 361100004075 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 361100004076 active site 361100004077 Zn binding site [ion binding]; other site 361100004078 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100004079 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100004080 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 361100004081 active site 361100004082 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 361100004083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100004084 active site 361100004085 xanthine permease; Region: pbuX; TIGR03173 361100004086 Predicted membrane protein [Function unknown]; Region: COG2311 361100004087 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100004088 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100004089 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 361100004090 Dynamin family; Region: Dynamin_N; pfam00350 361100004091 G1 box; other site 361100004092 GTP/Mg2+ binding site [chemical binding]; other site 361100004093 G2 box; other site 361100004094 Switch I region; other site 361100004095 G3 box; other site 361100004096 Switch II region; other site 361100004097 G4 box; other site 361100004098 G5 box; other site 361100004099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004100 Dynamin family; Region: Dynamin_N; pfam00350 361100004101 G1 box; other site 361100004102 GTP/Mg2+ binding site [chemical binding]; other site 361100004103 G2 box; other site 361100004104 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 361100004105 G3 box; other site 361100004106 Switch II region; other site 361100004107 GTP/Mg2+ binding site [chemical binding]; other site 361100004108 G4 box; other site 361100004109 G5 box; other site 361100004110 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100004111 Coenzyme A binding pocket [chemical binding]; other site 361100004112 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 361100004113 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 361100004114 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 361100004115 active site residue [active] 361100004116 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 361100004117 active site residue [active] 361100004118 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 361100004119 Predicted membrane protein [Function unknown]; Region: COG3766 361100004120 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 361100004121 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 361100004122 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 361100004123 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 361100004124 5'-3' exonuclease; Region: 53EXOc; smart00475 361100004125 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 361100004126 active site 361100004127 metal binding site 1 [ion binding]; metal-binding site 361100004128 putative 5' ssDNA interaction site; other site 361100004129 metal binding site 3; metal-binding site 361100004130 metal binding site 2 [ion binding]; metal-binding site 361100004131 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 361100004132 putative DNA binding site [nucleotide binding]; other site 361100004133 putative metal binding site [ion binding]; other site 361100004134 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 361100004135 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004136 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004137 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004138 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004139 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004140 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004141 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004142 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004143 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004144 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004145 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004146 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004147 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004148 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004149 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004150 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004151 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004152 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004153 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004154 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004155 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004156 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004157 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004158 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004159 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004160 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100004161 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100004162 catalytic triad [active] 361100004163 conserved cis-peptide bond; other site 361100004164 EamA-like transporter family; Region: EamA; cl01037 361100004165 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100004166 EamA-like transporter family; Region: EamA; cl01037 361100004167 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 361100004168 RNA/DNA hybrid binding site [nucleotide binding]; other site 361100004169 active site 361100004170 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 361100004171 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 361100004172 active site 361100004173 catalytic residues [active] 361100004174 QueT transporter; Region: QueT; cl01932 361100004175 hypothetical protein; Validated; Region: PRK07708 361100004176 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 361100004177 RNA/DNA hybrid binding site [nucleotide binding]; other site 361100004178 active site 361100004179 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 361100004180 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 361100004181 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100004182 DNA-binding site [nucleotide binding]; DNA binding site 361100004183 RNA-binding motif; other site 361100004184 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 361100004185 LysE type translocator; Region: LysE; cl00565 361100004186 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 361100004187 Protein of unknown function, DUF485; Region: DUF485; cl01231 361100004188 Sodium:solute symporter family; Region: SSF; cl00456 361100004189 aminotransferase; Validated; Region: PRK07678 361100004190 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100004191 inhibitor-cofactor binding pocket; inhibition site 361100004192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004193 catalytic residue [active] 361100004194 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 361100004195 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 361100004196 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100004197 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 361100004198 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100004199 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 361100004200 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100004201 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 361100004202 DNA binding residues [nucleotide binding] 361100004203 drug binding residues [chemical binding]; other site 361100004204 dimer interface [polypeptide binding]; other site 361100004205 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100004206 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 361100004207 MatE; Region: MatE; cl10513 361100004208 MatE; Region: MatE; cl10513 361100004209 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100004210 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 361100004211 putative active site [active] 361100004212 Tic20-like protein; Region: Tic20; pfam09685 361100004213 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 361100004214 dimer interface [polypeptide binding]; other site 361100004215 FMN binding site [chemical binding]; other site 361100004216 NADPH bind site [chemical binding]; other site 361100004217 DJ-1 family protein; Region: not_thiJ; TIGR01383 361100004218 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 361100004219 conserved cys residue [active] 361100004220 RNA polymerase factor sigma-70; Validated; Region: PRK06811 361100004221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100004222 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100004223 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 361100004224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004225 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100004226 putative substrate translocation pore; other site 361100004227 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100004228 dimerization interface [polypeptide binding]; other site 361100004229 putative DNA binding site [nucleotide binding]; other site 361100004230 putative Zn2+ binding site [ion binding]; other site 361100004231 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100004232 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 361100004233 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 361100004234 Sm1 motif; other site 361100004235 D1 - D2 interaction site; other site 361100004236 D3 - B interaction site; other site 361100004237 Hfq - Hfq interaction site; other site 361100004238 RNA binding pocket [nucleotide binding]; other site 361100004239 Sm2 motif; other site 361100004240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100004241 flagellar motor protein MotP; Reviewed; Region: PRK06926 361100004242 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 361100004243 flagellar motor protein MotS; Reviewed; Region: PRK06742 361100004244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 361100004245 ligand binding site [chemical binding]; other site 361100004246 Response regulator receiver domain; Region: Response_reg; pfam00072 361100004247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004248 active site 361100004249 phosphorylation site [posttranslational modification] 361100004250 intermolecular recognition site; other site 361100004251 dimerization interface [polypeptide binding]; other site 361100004252 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 361100004253 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 361100004254 putative binding surface; other site 361100004255 active site 361100004256 P2 response regulator binding domain; Region: P2; pfam07194 361100004257 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 361100004258 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004259 ATP binding site [chemical binding]; other site 361100004260 Mg2+ binding site [ion binding]; other site 361100004261 G-X-G motif; other site 361100004262 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 361100004263 flagellar motor switch protein; Reviewed; Region: PRK06782 361100004264 Chemotaxis phosphatase CheX; Region: CheX; cl15816 361100004265 Chemotaxis phosphatase CheX; Region: CheX; cl15816 361100004266 Chemotaxis phosphatase CheX; Region: CheX; cl15816 361100004267 Chemotaxis phosphatase CheX; Region: CheX; cl15816 361100004268 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 361100004269 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 361100004270 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 361100004271 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100004272 Protein of unknown function (DUF327); Region: DUF327; cl00753 361100004273 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06799 361100004274 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 361100004275 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08073 361100004276 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 361100004277 flagellar capping protein; Validated; Region: fliD; PRK06798 361100004278 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 361100004279 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 361100004280 Flagellar protein FliS; Region: FliS; cl00654 361100004281 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06797 361100004282 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 361100004283 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 361100004284 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 361100004285 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 361100004286 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 361100004287 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 361100004288 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 361100004289 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 361100004290 FliG C-terminal domain; Region: FliG_C; pfam01706 361100004291 flagellar assembly protein H; Validated; Region: fliH; PRK06800 361100004292 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06793 361100004293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004294 Walker A motif; other site 361100004295 ATP binding site [chemical binding]; other site 361100004296 Walker B motif; other site 361100004297 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 361100004298 flagellar basal body rod modification protein; Validated; Region: flgD; PRK06792 361100004299 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 361100004300 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 361100004301 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 361100004302 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 361100004303 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 361100004304 Protein of unknown function (DUF3964); Region: DUF3964; pfam13107 361100004305 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 361100004306 putative CheA interaction surface; other site 361100004307 Response regulator receiver domain; Region: Response_reg; pfam00072 361100004308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004309 active site 361100004310 phosphorylation site [posttranslational modification] 361100004311 intermolecular recognition site; other site 361100004312 dimerization interface [polypeptide binding]; other site 361100004313 DNA binding domain of the motility gene repressor (MogR); Region: MogR_DNAbind; pfam12181 361100004314 flagellin; Provisional; Region: PRK12807 361100004315 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 361100004316 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 361100004317 flagellin; Provisional; Region: PRK12808 361100004318 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 361100004319 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 361100004320 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 361100004321 N-acetyl-D-glucosamine binding site [chemical binding]; other site 361100004322 catalytic residue [active] 361100004323 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 361100004324 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 361100004325 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 361100004326 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 361100004327 FliP family; Region: FliP; cl00593 361100004328 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 361100004329 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 361100004330 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 361100004331 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 361100004332 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 361100004333 FHIPEP family; Region: FHIPEP; pfam00771 361100004334 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK11889 361100004335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004336 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12819 361100004337 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 361100004338 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 361100004339 Helix-turn-helix domains; Region: HTH; cl00088 361100004340 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 361100004341 C-terminal domain interface [polypeptide binding]; other site 361100004342 sugar binding site [chemical binding]; other site 361100004343 AzlC protein; Region: AzlC; cl00570 361100004344 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 361100004345 Protein of unknown function (DUF3951); Region: DUF3951; pfam13131 361100004346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100004347 Helix-turn-helix domains; Region: HTH; cl00088 361100004348 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 361100004349 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 361100004350 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100004351 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 361100004352 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100004353 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 361100004354 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100004355 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100004356 Gram positive anchor; Region: Gram_pos_anchor; cl15427 361100004357 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 361100004358 active site 361100004359 catalytic site [active] 361100004360 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 361100004361 active site 361100004362 catalytic site [active] 361100004363 Small acid-soluble spore protein H family; Region: SspH; cl06949 361100004364 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100004365 non-specific DNA binding site [nucleotide binding]; other site 361100004366 salt bridge; other site 361100004367 sequence-specific DNA binding site [nucleotide binding]; other site 361100004368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004369 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100004370 putative substrate translocation pore; other site 361100004371 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 361100004372 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100004373 Helix-turn-helix domains; Region: HTH; cl00088 361100004374 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100004375 dimerization interface [polypeptide binding]; other site 361100004376 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 361100004377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004378 Walker A/P-loop; other site 361100004379 ATP binding site [chemical binding]; other site 361100004380 Q-loop/lid; other site 361100004381 ABC transporter signature motif; other site 361100004382 Walker B; other site 361100004383 D-loop; other site 361100004384 H-loop/switch region; other site 361100004385 TOBE domain; Region: TOBE_2; cl01440 361100004386 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 361100004387 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100004388 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 361100004389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100004390 dimer interface [polypeptide binding]; other site 361100004391 conserved gate region; other site 361100004392 putative PBP binding loops; other site 361100004393 ABC-ATPase subunit interface; other site 361100004394 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100004395 dimer interface [polypeptide binding]; other site 361100004396 conserved gate region; other site 361100004397 putative PBP binding loops; other site 361100004398 ABC-ATPase subunit interface; other site 361100004399 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 361100004400 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100004401 Beta-Casp domain; Region: Beta-Casp; cl12567 361100004402 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 361100004403 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 361100004404 Cupin domain; Region: Cupin_2; cl09118 361100004405 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100004406 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 361100004407 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100004408 catalytic core [active] 361100004409 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100004410 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100004411 hypothetical protein; Provisional; Region: PRK09272 361100004412 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100004413 Helix-turn-helix domains; Region: HTH; cl00088 361100004414 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100004415 active site 361100004416 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100004417 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 361100004418 active site 361100004419 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 361100004420 dimer interface [polypeptide binding]; other site 361100004421 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 361100004422 Ligand Binding Site [chemical binding]; other site 361100004423 Molecular Tunnel; other site 361100004424 RNA polymerase factor sigma-70; Validated; Region: PRK06811 361100004425 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100004426 DNA binding residues [nucleotide binding] 361100004427 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 361100004428 VPS10 domain; Region: VPS10; smart00602 361100004429 VPS10 domain; Region: VPS10; smart00602 361100004430 Cation efflux family; Region: Cation_efflux; cl00316 361100004431 Protein of unknown function (DUF3940); Region: DUF3940; pfam13076 361100004432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100004433 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 361100004434 DNA-binding site [nucleotide binding]; DNA binding site 361100004435 FCD domain; Region: FCD; cl11656 361100004436 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 361100004437 EamA-like transporter family; Region: EamA; cl01037 361100004438 EamA-like transporter family; Region: EamA; cl01037 361100004439 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100004440 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 361100004441 fumarate hydratase; Reviewed; Region: fumC; PRK00485 361100004442 Class II fumarases; Region: Fumarase_classII; cd01362 361100004443 active site 361100004444 tetramer interface [polypeptide binding]; other site 361100004445 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 361100004446 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 361100004447 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 361100004448 MatE; Region: MatE; cl10513 361100004449 MatE; Region: MatE; cl10513 361100004450 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 361100004451 active site pocket [active] 361100004452 oxyanion hole [active] 361100004453 catalytic triad [active] 361100004454 active site nucleophile [active] 361100004455 Protein of unknown function (DUF3942); Region: DUF3942; pfam13078 361100004456 Helix-turn-helix domains; Region: HTH; cl00088 361100004457 Peptidase family M48; Region: Peptidase_M48; cl12018 361100004458 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 361100004459 catalytic residues [active] 361100004460 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 361100004461 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 361100004462 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100004463 non-specific DNA binding site [nucleotide binding]; other site 361100004464 salt bridge; other site 361100004465 sequence-specific DNA binding site [nucleotide binding]; other site 361100004466 Cupin domain; Region: Cupin_2; cl09118 361100004467 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 361100004468 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100004469 catalytic residue [active] 361100004470 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 361100004471 Protein of unknown function (DUF445); Region: DUF445; pfam04286 361100004472 RNA polymerase sigma factor SigW; Reviewed; Region: PRK09642 361100004473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100004474 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100004475 DNA binding residues [nucleotide binding] 361100004476 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004478 active site 361100004479 phosphorylation site [posttranslational modification] 361100004480 intermolecular recognition site; other site 361100004481 dimerization interface [polypeptide binding]; other site 361100004482 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100004483 DNA binding residues [nucleotide binding] 361100004484 dimerization interface [polypeptide binding]; other site 361100004485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 361100004486 Histidine kinase; Region: HisKA_3; pfam07730 361100004487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004488 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 361100004489 Walker A/P-loop; other site 361100004490 ATP binding site [chemical binding]; other site 361100004491 Q-loop/lid; other site 361100004492 ABC transporter signature motif; other site 361100004493 Walker B; other site 361100004494 D-loop; other site 361100004495 H-loop/switch region; other site 361100004496 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 361100004497 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100004498 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 361100004499 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100004500 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100004501 putative active site [active] 361100004502 catalytic site [active] 361100004503 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100004504 PLD-like domain; Region: PLDc_2; pfam13091 361100004505 putative active site [active] 361100004506 catalytic site [active] 361100004507 Histidine kinase; Region: HisKA_3; pfam07730 361100004508 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004509 ATP binding site [chemical binding]; other site 361100004510 Mg2+ binding site [ion binding]; other site 361100004511 G-X-G motif; other site 361100004512 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100004513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004514 active site 361100004515 phosphorylation site [posttranslational modification] 361100004516 intermolecular recognition site; other site 361100004517 dimerization interface [polypeptide binding]; other site 361100004518 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100004519 DNA binding residues [nucleotide binding] 361100004520 dimerization interface [polypeptide binding]; other site 361100004521 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 361100004522 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 361100004523 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 361100004524 putative nucleotide binding site [chemical binding]; other site 361100004525 uridine monophosphate binding site [chemical binding]; other site 361100004526 homohexameric interface [polypeptide binding]; other site 361100004527 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 361100004528 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100004529 aspartate ammonia-lyase; Provisional; Region: PRK14515 361100004530 Aspartase; Region: Aspartase; cd01357 361100004531 active sites [active] 361100004532 tetramer interface [polypeptide binding]; other site 361100004533 malate dehydrogenase; Provisional; Region: PRK13529 361100004534 Malic enzyme, N-terminal domain; Region: malic; pfam00390 361100004535 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 361100004536 NAD(P) binding site [chemical binding]; other site 361100004537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100004538 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004539 ATP binding site [chemical binding]; other site 361100004540 Mg2+ binding site [ion binding]; other site 361100004541 G-X-G motif; other site 361100004542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004543 Response regulator receiver domain; Region: Response_reg; pfam00072 361100004544 active site 361100004545 phosphorylation site [posttranslational modification] 361100004546 intermolecular recognition site; other site 361100004547 dimerization interface [polypeptide binding]; other site 361100004548 YcbB domain; Region: YcbB; pfam08664 361100004549 Uncharacterized conserved protein [Function unknown]; Region: COG4715 361100004550 SWIM zinc finger; Region: SWIM; cl15408 361100004551 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 361100004552 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 361100004553 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100004554 ATP binding site [chemical binding]; other site 361100004555 putative Mg++ binding site [ion binding]; other site 361100004556 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 361100004557 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100004558 nucleotide binding region [chemical binding]; other site 361100004559 ATP-binding site [chemical binding]; other site 361100004560 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 361100004561 dimer interface [polypeptide binding]; other site 361100004562 active site 361100004563 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100004564 non-specific DNA binding site [nucleotide binding]; other site 361100004565 salt bridge; other site 361100004566 sequence-specific DNA binding site [nucleotide binding]; other site 361100004567 aspartate kinase; Reviewed; Region: PRK06635 361100004568 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 361100004569 putative nucleotide binding site [chemical binding]; other site 361100004570 putative catalytic residues [active] 361100004571 putative Mg ion binding site [ion binding]; other site 361100004572 putative aspartate binding site [chemical binding]; other site 361100004573 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 361100004574 putative allosteric regulatory site; other site 361100004575 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 361100004576 putative allosteric regulatory residue; other site 361100004577 DoxX-like family; Region: DoxX_3; pfam13781 361100004578 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 361100004579 YndJ-like protein; Region: YndJ; pfam14158 361100004580 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 361100004581 putative active site [active] 361100004582 nucleotide binding site [chemical binding]; other site 361100004583 nudix motif; other site 361100004584 putative metal binding site [ion binding]; other site 361100004585 S-layer homology domain; Region: SLH; pfam00395 361100004586 S-layer homology domain; Region: SLH; pfam00395 361100004587 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 361100004588 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 361100004589 active site 361100004590 metal binding site [ion binding]; metal-binding site 361100004591 S-layer homology domain; Region: SLH; pfam00395 361100004592 S-layer homology domain; Region: SLH; pfam00395 361100004593 S-layer homology domain; Region: SLH; pfam00395 361100004594 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 361100004595 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100004596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004597 putative substrate translocation pore; other site 361100004598 Carbon starvation protein CstA; Region: CstA; pfam02554 361100004599 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 361100004600 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 361100004601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004602 active site 361100004603 Helix-turn-helix domains; Region: HTH; cl00088 361100004604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004605 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100004606 putative substrate translocation pore; other site 361100004607 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004608 putative substrate translocation pore; other site 361100004609 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 361100004610 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 361100004611 dimer interface [polypeptide binding]; other site 361100004612 active site 361100004613 CoA binding pocket [chemical binding]; other site 361100004614 NTR_like domain; a beta barrel with an oligosaccharide/oligonucleotide-binding fold found in netrins, complement proteins, tissue inhibitors of metalloproteases (TIMP), and procollagen C-proteinase enhancers (PCOLCE), amongst others. In netrins, the...; Region: NTR_like; cl02512 361100004615 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 361100004616 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 361100004617 HflX GTPase family; Region: HflX; cd01878 361100004618 G1 box; other site 361100004619 GTP/Mg2+ binding site [chemical binding]; other site 361100004620 Switch I region; other site 361100004621 G2 box; other site 361100004622 G3 box; other site 361100004623 Switch II region; other site 361100004624 G4 box; other site 361100004625 G5 box; other site 361100004626 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100004627 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100004628 peptide binding site [polypeptide binding]; other site 361100004629 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004630 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100004631 putative substrate translocation pore; other site 361100004632 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 361100004633 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 361100004634 dimer interface [polypeptide binding]; other site 361100004635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004636 catalytic residue [active] 361100004637 Predicted acetyltransferase [General function prediction only]; Region: COG3981 361100004638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100004639 Coenzyme A binding pocket [chemical binding]; other site 361100004640 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 361100004641 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 361100004642 MatE; Region: MatE; cl10513 361100004643 MatE; Region: MatE; cl10513 361100004644 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 361100004645 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 361100004646 NodB motif; other site 361100004647 putative active site [active] 361100004648 putative catalytic site [active] 361100004649 putative Zn binding site [ion binding]; other site 361100004650 Mor transcription activator family; Region: Mor; cl02360 361100004651 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100004652 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 361100004653 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 361100004654 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 361100004655 homodimer interface [polypeptide binding]; other site 361100004656 substrate-cofactor binding pocket; other site 361100004657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004658 catalytic residue [active] 361100004659 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06725 361100004660 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 361100004661 PYR/PP interface [polypeptide binding]; other site 361100004662 dimer interface [polypeptide binding]; other site 361100004663 TPP binding site [chemical binding]; other site 361100004664 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 361100004665 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 361100004666 TPP-binding site [chemical binding]; other site 361100004667 dimer interface [polypeptide binding]; other site 361100004668 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 361100004669 ketol-acid reductoisomerase; Provisional; Region: PRK05479 361100004670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100004671 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 361100004672 Dehydratase family; Region: ILVD_EDD; cl00340 361100004673 threonine dehydratase; Validated; Region: PRK08639 361100004674 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 361100004675 tetramer interface [polypeptide binding]; other site 361100004676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004677 catalytic residue [active] 361100004678 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 361100004679 putative Ile/Val binding site [chemical binding]; other site 361100004680 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 361100004681 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 361100004682 putative active site [active] 361100004683 putative metal binding site [ion binding]; other site 361100004684 Protein of unknown function (DUF554); Region: DUF554; cl00784 361100004685 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100004686 drug efflux system protein MdtG; Provisional; Region: PRK09874 361100004687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004688 putative substrate translocation pore; other site 361100004689 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 361100004690 putative active site [active] 361100004691 metal binding site [ion binding]; metal-binding site 361100004692 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 361100004693 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100004694 LytTr DNA-binding domain; Region: LytTR; cl04498 361100004695 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 361100004696 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 361100004697 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100004698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100004699 Coenzyme A binding pocket [chemical binding]; other site 361100004700 5-methylthioadenosine/S-adenosylhomocysteine deaminase; Provisional; Region: PRK15493 361100004701 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 361100004702 active site 361100004703 putative substrate binding pocket [chemical binding]; other site 361100004704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100004705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004706 ABC transporter signature motif; other site 361100004707 Walker B; other site 361100004708 D-loop; other site 361100004709 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100004710 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100004711 peptide binding site [polypeptide binding]; other site 361100004712 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100004713 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100004714 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100004715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004716 active site 361100004717 phosphorylation site [posttranslational modification] 361100004718 intermolecular recognition site; other site 361100004719 dimerization interface [polypeptide binding]; other site 361100004720 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100004721 DNA binding site [nucleotide binding] 361100004722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100004723 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100004724 dimerization interface [polypeptide binding]; other site 361100004725 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100004726 dimer interface [polypeptide binding]; other site 361100004727 phosphorylation site [posttranslational modification] 361100004728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004729 ATP binding site [chemical binding]; other site 361100004730 Mg2+ binding site [ion binding]; other site 361100004731 G-X-G motif; other site 361100004732 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100004733 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 361100004734 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 361100004735 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 361100004736 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 361100004737 active site residue [active] 361100004738 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 361100004739 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 361100004740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100004741 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 361100004742 Amino acid permease; Region: AA_permease_2; pfam13520 361100004743 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 361100004744 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 361100004745 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 361100004746 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 361100004747 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100004748 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 361100004749 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 361100004750 intersubunit interface [polypeptide binding]; other site 361100004751 active site 361100004752 catalytic residue [active] 361100004753 nucleoside transporter; Region: nupC; TIGR00804 361100004754 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100004755 Nucleoside recognition; Region: Gate; cl00486 361100004756 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100004757 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 361100004758 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 361100004759 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 361100004760 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 361100004761 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 361100004762 active site 361100004763 catalytic motif [active] 361100004764 Zn binding site [ion binding]; other site 361100004765 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 361100004766 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 361100004767 proline aminopeptidase P II; Provisional; Region: PRK10879 361100004768 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 361100004769 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 361100004770 active site 361100004771 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 361100004772 DNA topoisomerase III; Provisional; Region: PRK07726 361100004773 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 361100004774 active site 361100004775 putative interdomain interaction site [polypeptide binding]; other site 361100004776 putative metal-binding site [ion binding]; other site 361100004777 putative nucleotide binding site [chemical binding]; other site 361100004778 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 361100004779 domain I; other site 361100004780 DNA binding groove [nucleotide binding] 361100004781 phosphate binding site [ion binding]; other site 361100004782 domain II; other site 361100004783 domain III; other site 361100004784 nucleotide binding site [chemical binding]; other site 361100004785 catalytic site [active] 361100004786 domain IV; other site 361100004787 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 361100004788 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 361100004789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004790 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100004791 putative substrate translocation pore; other site 361100004792 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 361100004793 Membrane transport protein; Region: Mem_trans; cl09117 361100004794 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100004795 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100004796 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100004797 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 361100004798 dimer interface [polypeptide binding]; other site 361100004799 substrate binding site [chemical binding]; other site 361100004800 metal binding site [ion binding]; metal-binding site 361100004801 Bacterial Ig-like domain; Region: Big_5; cl01012 361100004802 Copper resistance protein D; Region: CopD; cl00563 361100004803 FixH; Region: FixH; cl01254 361100004804 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 361100004805 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 361100004806 EamA-like transporter family; Region: EamA; cl01037 361100004807 EamA-like transporter family; Region: EamA; cl01037 361100004808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100004809 Helix-turn-helix domains; Region: HTH; cl00088 361100004810 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100004811 dimerization interface [polypeptide binding]; other site 361100004812 Predicted transcriptional regulator [Transcription]; Region: COG1959 361100004813 Helix-turn-helix domains; Region: HTH; cl00088 361100004814 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 361100004815 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 361100004816 catalytic residues [active] 361100004817 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 361100004818 dimer interface [polypeptide binding]; other site 361100004819 FMN binding site [chemical binding]; other site 361100004820 amidase; Provisional; Region: PRK06707 361100004821 Amidase; Region: Amidase; cl11426 361100004822 Domain of unknown function DUF20; Region: UPF0118; pfam01594 361100004823 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 361100004824 dimer interface [polypeptide binding]; other site 361100004825 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100004826 NAD binding site [chemical binding]; other site 361100004827 substrate binding site [chemical binding]; other site 361100004828 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 361100004829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100004830 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 361100004831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004832 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 361100004833 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 361100004834 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 361100004835 putative ligand binding site [chemical binding]; other site 361100004836 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 361100004837 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 361100004838 Walker A/P-loop; other site 361100004839 ATP binding site [chemical binding]; other site 361100004840 Q-loop/lid; other site 361100004841 ABC transporter signature motif; other site 361100004842 Walker B; other site 361100004843 D-loop; other site 361100004844 H-loop/switch region; other site 361100004845 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 361100004846 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 361100004847 Walker A/P-loop; other site 361100004848 ATP binding site [chemical binding]; other site 361100004849 Q-loop/lid; other site 361100004850 ABC transporter signature motif; other site 361100004851 Walker B; other site 361100004852 D-loop; other site 361100004853 H-loop/switch region; other site 361100004854 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 361100004855 TM-ABC transporter signature motif; other site 361100004856 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 361100004857 TM-ABC transporter signature motif; other site 361100004858 Helix-turn-helix domains; Region: HTH; cl00088 361100004859 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 361100004860 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100004861 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 361100004862 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100004863 Helix-turn-helix domains; Region: HTH; cl00088 361100004864 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 361100004865 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 361100004866 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 361100004867 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 361100004868 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 361100004869 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 361100004870 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100004871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004872 Walker A/P-loop; other site 361100004873 ATP binding site [chemical binding]; other site 361100004874 Q-loop/lid; other site 361100004875 ABC transporter signature motif; other site 361100004876 Walker B; other site 361100004877 D-loop; other site 361100004878 H-loop/switch region; other site 361100004879 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 361100004880 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100004881 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 361100004882 Walker A/P-loop; other site 361100004883 ATP binding site [chemical binding]; other site 361100004884 Q-loop/lid; other site 361100004885 ABC transporter signature motif; other site 361100004886 Walker B; other site 361100004887 D-loop; other site 361100004888 H-loop/switch region; other site 361100004889 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 361100004890 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100004891 active site 361100004892 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100004893 active site 361100004894 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100004895 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100004896 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 361100004897 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 361100004898 inhibitor-cofactor binding pocket; inhibition site 361100004899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004900 catalytic residue [active] 361100004901 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 361100004902 trimer interface [polypeptide binding]; other site 361100004903 active site 361100004904 substrate binding site [chemical binding]; other site 361100004905 CoA binding site [chemical binding]; other site 361100004906 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 361100004907 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 361100004908 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 361100004909 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100004910 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 361100004911 dimer interface [polypeptide binding]; other site 361100004912 FMN binding site [chemical binding]; other site 361100004913 Bacterial SH3 domain; Region: SH3_3; cl02551 361100004914 Bacterial SH3 domain; Region: SH3_3; cl02551 361100004915 Bacterial SH3 domain; Region: SH3_3; cl02551 361100004916 NlpC/P60 family; Region: NLPC_P60; cl11438 361100004917 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100004918 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100004919 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100004920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100004921 Walker A/P-loop; other site 361100004922 ATP binding site [chemical binding]; other site 361100004923 Q-loop/lid; other site 361100004924 ABC transporter signature motif; other site 361100004925 Walker B; other site 361100004926 D-loop; other site 361100004927 H-loop/switch region; other site 361100004928 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100004929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100004930 active site 361100004931 phosphorylation site [posttranslational modification] 361100004932 intermolecular recognition site; other site 361100004933 dimerization interface [polypeptide binding]; other site 361100004934 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100004935 DNA binding site [nucleotide binding] 361100004936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100004937 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 361100004938 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100004939 dimer interface [polypeptide binding]; other site 361100004940 phosphorylation site [posttranslational modification] 361100004941 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004942 ATP binding site [chemical binding]; other site 361100004943 Mg2+ binding site [ion binding]; other site 361100004944 G-X-G motif; other site 361100004945 classical (c) SDRs; Region: SDR_c; cd05233 361100004946 NAD(P) binding site [chemical binding]; other site 361100004947 active site 361100004948 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 361100004949 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100004950 S-adenosylmethionine binding site [chemical binding]; other site 361100004951 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 361100004952 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 361100004953 NodB motif; other site 361100004954 active site 361100004955 catalytic site [active] 361100004956 metal binding site [ion binding]; metal-binding site 361100004957 SdpI/YhfL protein family; Region: SdpI; pfam13630 361100004958 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100004959 nudix motif; other site 361100004960 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 361100004961 homoserine dehydrogenase; Provisional; Region: PRK06349 361100004962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100004963 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 361100004964 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 361100004965 threonine synthase; Reviewed; Region: PRK06721 361100004966 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 361100004967 homodimer interface [polypeptide binding]; other site 361100004968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004969 catalytic residue [active] 361100004970 homoserine kinase; Provisional; Region: PRK01212 361100004971 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 361100004972 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 361100004973 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 361100004974 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100004975 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100004976 ATP binding site [chemical binding]; other site 361100004977 G-X-G motif; other site 361100004978 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 361100004979 NodB motif; other site 361100004980 active site 361100004981 catalytic site [active] 361100004982 Zn binding site [ion binding]; other site 361100004983 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 361100004984 MgtC family; Region: MgtC; pfam02308 361100004985 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 361100004986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100004987 Coenzyme A binding pocket [chemical binding]; other site 361100004988 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100004989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100004990 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100004991 putative substrate translocation pore; other site 361100004992 LysE type translocator; Region: LysE; cl00565 361100004993 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100004994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100004995 DNA-binding site [nucleotide binding]; DNA binding site 361100004996 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100004997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100004998 homodimer interface [polypeptide binding]; other site 361100004999 catalytic residue [active] 361100005000 Protein of unknown function (DUF3933); Region: DUF3933; pfam13069 361100005001 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 361100005002 active site 361100005003 nucleophile elbow; other site 361100005004 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 361100005005 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 361100005006 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 361100005007 Domain of unknown function (DUF4083); Region: DUF4083; pfam13314 361100005008 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 361100005009 nudix motif; other site 361100005010 NAD+ synthetase; Region: nadE; TIGR00552 361100005011 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 361100005012 homodimer interface [polypeptide binding]; other site 361100005013 NAD binding pocket [chemical binding]; other site 361100005014 ATP binding pocket [chemical binding]; other site 361100005015 Mg binding site [ion binding]; other site 361100005016 active-site loop [active] 361100005017 FtsX-like permease family; Region: FtsX; cl15850 361100005018 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100005019 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 361100005020 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 361100005021 active site 361100005022 catalytic residues [active] 361100005023 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 361100005024 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 361100005025 Walker A/P-loop; other site 361100005026 ATP binding site [chemical binding]; other site 361100005027 Q-loop/lid; other site 361100005028 ABC transporter signature motif; other site 361100005029 Walker B; other site 361100005030 D-loop; other site 361100005031 H-loop/switch region; other site 361100005032 TOBE domain; Region: TOBE_2; cl01440 361100005033 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 361100005034 Helix-turn-helix domains; Region: HTH; cl00088 361100005035 Cupin domain; Region: Cupin_2; cl09118 361100005036 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 361100005037 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family; Region: bind_CPR_0540; TIGR03850 361100005038 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100005039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100005040 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 361100005041 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 361100005042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100005043 dimer interface [polypeptide binding]; other site 361100005044 conserved gate region; other site 361100005045 putative PBP binding loops; other site 361100005046 ABC-ATPase subunit interface; other site 361100005047 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 361100005048 Lacto-N-biose phosphorylase; Region: Lact_bio_phlase; pfam09508 361100005049 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 361100005050 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100005051 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 361100005052 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 361100005053 dimer interface [polypeptide binding]; other site 361100005054 active site 361100005055 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 361100005056 putative active site [active] 361100005057 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 361100005058 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 361100005059 active site 361100005060 dimer interface [polypeptide binding]; other site 361100005061 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 361100005062 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 361100005063 putative substrate binding site [chemical binding]; other site 361100005064 putative ATP binding site [chemical binding]; other site 361100005065 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 361100005066 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 361100005067 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 361100005068 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 361100005069 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 361100005070 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100005071 dimerization interface [polypeptide binding]; other site 361100005072 putative DNA binding site [nucleotide binding]; other site 361100005073 putative Zn2+ binding site [ion binding]; other site 361100005074 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 361100005075 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100005076 active site 361100005077 catalytic tetrad [active] 361100005078 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100005079 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005080 putative substrate translocation pore; other site 361100005081 Protein of unknown function (DUF4257); Region: DUF4257; pfam14074 361100005082 DinB superfamily; Region: DinB_2; pfam12867 361100005083 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100005084 GTPase RsgA; Reviewed; Region: PRK01889 361100005085 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 361100005086 RNA binding site [nucleotide binding]; other site 361100005087 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 361100005088 GTPase/Zn-binding domain interface [polypeptide binding]; other site 361100005089 GTP/Mg2+ binding site [chemical binding]; other site 361100005090 G4 box; other site 361100005091 G5 box; other site 361100005092 G1 box; other site 361100005093 Switch I region; other site 361100005094 G2 box; other site 361100005095 G3 box; other site 361100005096 Switch II region; other site 361100005097 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 361100005098 Cache domain; Region: Cache_1; pfam02743 361100005099 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 361100005100 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100005101 dimerization interface [polypeptide binding]; other site 361100005102 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100005103 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100005104 dimer interface [polypeptide binding]; other site 361100005105 putative CheW interface [polypeptide binding]; other site 361100005106 Protein of unknown function (DUF3979); Region: DUF3979; pfam13141 361100005107 Uncharacterized membrane protein [Function unknown]; Region: COG3949 361100005108 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 361100005109 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 361100005110 dimerization interface [polypeptide binding]; other site 361100005111 DPS ferroxidase diiron center [ion binding]; other site 361100005112 ion pore; other site 361100005113 Protein of unknown function (DUF3939); Region: DUF3939; pfam13075 361100005114 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 361100005115 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 361100005116 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 361100005117 Protein of unknown function (DUF3896); Region: DUF3896; pfam13035 361100005118 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 361100005119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005120 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100005121 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005122 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100005123 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 361100005124 active site 361100005125 catalytic tetrad [active] 361100005126 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 361100005127 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 361100005128 P-loop, Walker A motif; other site 361100005129 Base recognition motif; other site 361100005130 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 361100005131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005132 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100005133 Coenzyme A binding pocket [chemical binding]; other site 361100005134 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 361100005135 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 361100005136 metal binding site [ion binding]; metal-binding site 361100005137 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 361100005138 NADH(P)-binding; Region: NAD_binding_10; pfam13460 361100005139 NAD binding site [chemical binding]; other site 361100005140 active site 361100005141 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 361100005142 active site 361100005143 FMN binding site [chemical binding]; other site 361100005144 substrate binding site [chemical binding]; other site 361100005145 homotetramer interface [polypeptide binding]; other site 361100005146 catalytic residue [active] 361100005147 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 361100005148 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 361100005149 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 361100005150 DNA binding site [nucleotide binding] 361100005151 active site 361100005152 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 361100005153 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100005154 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100005155 peptide binding site [polypeptide binding]; other site 361100005156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100005157 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100005158 active site 361100005159 metal binding site [ion binding]; metal-binding site 361100005160 short chain dehydrogenase; Provisional; Region: PRK08309 361100005161 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100005162 catalytic core [active] 361100005163 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 361100005164 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 361100005165 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 361100005166 nudix motif; other site 361100005167 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100005168 MatE; Region: MatE; cl10513 361100005169 integral membrane protein MviN; Region: mviN; TIGR01695 361100005170 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 361100005171 Predicted permease; Region: DUF318; pfam03773 361100005172 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 361100005173 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 361100005174 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 361100005175 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100005176 putative active site [active] 361100005177 catalytic site [active] 361100005178 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100005179 putative active site [active] 361100005180 catalytic site [active] 361100005181 Coat F domain; Region: Coat_F; cl15836 361100005182 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 361100005183 NADH(P)-binding; Region: NAD_binding_10; pfam13460 361100005184 NAD binding site [chemical binding]; other site 361100005185 substrate binding site [chemical binding]; other site 361100005186 putative active site [active] 361100005187 Protein of unknown function (DUF456); Region: DUF456; cl01069 361100005188 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 361100005189 Domain of unknown function DUF21; Region: DUF21; pfam01595 361100005190 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 361100005191 Transporter associated domain; Region: CorC_HlyC; cl08393 361100005192 FOG: CBS domain [General function prediction only]; Region: COG0517 361100005193 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 361100005194 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100005195 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 361100005196 dimer interface [polypeptide binding]; other site 361100005197 putative tRNA-binding site [nucleotide binding]; other site 361100005198 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100005199 DinB superfamily; Region: DinB_2; pfam12867 361100005200 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 361100005201 stage II sporulation protein P; Region: spore_II_P; TIGR02867 361100005202 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100005203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005204 Coenzyme A binding pocket [chemical binding]; other site 361100005205 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005206 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 361100005207 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100005208 nudix motif; other site 361100005209 amidase; Provisional; Region: PRK06828 361100005210 Amidase; Region: Amidase; cl11426 361100005211 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100005212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005213 putative substrate translocation pore; other site 361100005214 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 361100005215 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 361100005216 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 361100005217 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100005218 catalytic core [active] 361100005219 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005220 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100005221 active site 361100005222 motif I; other site 361100005223 motif II; other site 361100005224 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100005225 DinB superfamily; Region: DinB_2; pfam12867 361100005226 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100005227 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 361100005228 alanine racemase; Reviewed; Region: alr; PRK00053 361100005229 active site 361100005230 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 361100005231 dimer interface [polypeptide binding]; other site 361100005232 substrate binding site [chemical binding]; other site 361100005233 catalytic residues [active] 361100005234 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 361100005235 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100005236 S-adenosylmethionine binding site [chemical binding]; other site 361100005237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005238 Coenzyme A binding pocket [chemical binding]; other site 361100005239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005240 Coenzyme A binding pocket [chemical binding]; other site 361100005241 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100005242 active site 361100005243 ATP binding site [chemical binding]; other site 361100005244 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 361100005245 glycosyltransferase, MGT family; Region: MGT; TIGR01426 361100005246 active site 361100005247 TDP-binding site; other site 361100005248 acceptor substrate-binding pocket; other site 361100005249 homodimer interface [polypeptide binding]; other site 361100005250 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100005251 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100005252 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100005253 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100005254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100005255 DNA-binding site [nucleotide binding]; DNA binding site 361100005256 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100005257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100005258 homodimer interface [polypeptide binding]; other site 361100005259 catalytic residue [active] 361100005260 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 361100005261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005262 Coenzyme A binding pocket [chemical binding]; other site 361100005263 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100005264 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 361100005265 active site 361100005266 metal binding site [ion binding]; metal-binding site 361100005267 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 361100005268 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100005269 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005270 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005271 potential frameshift: common BLAST hit: gi|52143339|ref|YP_083488.1| group-specific protein 361100005272 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 361100005273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100005274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005275 Coenzyme A binding pocket [chemical binding]; other site 361100005276 Cupin domain; Region: Cupin_2; cl09118 361100005277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005278 Coenzyme A binding pocket [chemical binding]; other site 361100005279 Predicted acetyltransferase [General function prediction only]; Region: COG3393 361100005280 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005281 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 361100005282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100005283 S-adenosylmethionine binding site [chemical binding]; other site 361100005284 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 361100005285 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 361100005286 Potassium binding sites [ion binding]; other site 361100005287 Cesium cation binding sites [ion binding]; other site 361100005288 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 361100005289 DEAD-like helicases superfamily; Region: DEXDc; smart00487 361100005290 ATP binding site [chemical binding]; other site 361100005291 Mg++ binding site [ion binding]; other site 361100005292 motif III; other site 361100005293 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100005294 nucleotide binding region [chemical binding]; other site 361100005295 ATP-binding site [chemical binding]; other site 361100005296 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 361100005297 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100005298 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100005299 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 361100005300 NADP binding site [chemical binding]; other site 361100005301 dimer interface [polypeptide binding]; other site 361100005302 RNA polymerase sigma factor; Provisional; Region: PRK12543 361100005303 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100005304 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100005305 DNA binding residues [nucleotide binding] 361100005306 Domain of unknown function (DUF3600); Region: DUF3600; pfam12207 361100005307 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100005308 Protein of unknown function (DUF3925); Region: DUF3925; pfam13063 361100005309 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 361100005310 catalytic residues [active] 361100005311 dimer interface [polypeptide binding]; other site 361100005312 Sulfate transporter family; Region: Sulfate_transp; cl15842 361100005313 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 361100005314 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 361100005315 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 361100005316 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 361100005317 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100005318 Walker A motif; other site 361100005319 ATP binding site [chemical binding]; other site 361100005320 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 361100005321 Walker B motif; other site 361100005322 arginine finger; other site 361100005323 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 361100005324 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 361100005325 [4Fe-4S] binding site [ion binding]; other site 361100005326 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 361100005327 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 361100005328 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 361100005329 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 361100005330 molybdopterin cofactor binding site; other site 361100005331 nitrate reductase, beta subunit; Region: narH; TIGR01660 361100005332 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 361100005333 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 361100005334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 361100005335 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 361100005336 ligand binding site [chemical binding]; other site 361100005337 flexible hinge region; other site 361100005338 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 361100005339 putative switch regulator; other site 361100005340 non-specific DNA interactions [nucleotide binding]; other site 361100005341 DNA binding site [nucleotide binding] 361100005342 sequence specific DNA binding site [nucleotide binding]; other site 361100005343 putative cAMP binding site [chemical binding]; other site 361100005344 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 361100005345 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100005346 FeS/SAM binding site; other site 361100005347 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 361100005348 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 361100005349 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 361100005350 ATP binding site [chemical binding]; other site 361100005351 substrate interface [chemical binding]; other site 361100005352 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 361100005353 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 361100005354 dimer interface [polypeptide binding]; other site 361100005355 putative functional site; other site 361100005356 putative MPT binding site; other site 361100005357 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 361100005358 MoaE homodimer interface [polypeptide binding]; other site 361100005359 MoaD interaction [polypeptide binding]; other site 361100005360 active site residues [active] 361100005361 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 361100005362 MoaE interaction surface [polypeptide binding]; other site 361100005363 MoeB interaction surface [polypeptide binding]; other site 361100005364 thiocarboxylated glycine; other site 361100005365 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 361100005366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005367 putative substrate translocation pore; other site 361100005368 PspC domain; Region: PspC; cl00864 361100005369 Membrane transport protein; Region: Mem_trans; cl09117 361100005370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005371 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 361100005372 putative active site [active] 361100005373 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 361100005374 putative active site [active] 361100005375 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 361100005376 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 361100005377 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 361100005378 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 361100005379 [2Fe-2S] cluster binding site [ion binding]; other site 361100005380 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 361100005381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100005382 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 361100005383 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 361100005384 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 361100005385 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 361100005386 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 361100005387 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 361100005388 Excalibur calcium-binding domain; Region: Excalibur; cl05460 361100005389 N-acetyltransferase; Region: Acetyltransf_2; cl00949 361100005390 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 361100005391 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100005392 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 361100005393 Protein of unknown function (DUF3954); Region: DUF3954; pfam13128 361100005394 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 361100005395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100005396 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100005397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100005398 Walker A/P-loop; other site 361100005399 ATP binding site [chemical binding]; other site 361100005400 ABC transporter; Region: ABC_tran; pfam00005 361100005401 Q-loop/lid; other site 361100005402 ABC transporter signature motif; other site 361100005403 Walker B; other site 361100005404 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100005405 putative active site [active] 361100005406 putative NTP binding site [chemical binding]; other site 361100005407 putative nucleic acid binding site [nucleotide binding]; other site 361100005408 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100005409 Type II intron maturase; Region: Intron_maturas2; pfam01348 361100005410 ABC transporter; Region: ABC_tran_2; pfam12848 361100005411 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100005412 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100005413 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 361100005414 Domain of unknown function (DUF4318); Region: DUF4318; pfam14201 361100005415 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 361100005416 dimer interface [polypeptide binding]; other site 361100005417 ssDNA binding site [nucleotide binding]; other site 361100005418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100005419 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100005420 Helix-turn-helix domains; Region: HTH; cl00088 361100005421 hypothetical protein; Provisional; Region: PRK06753 361100005422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005423 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 361100005424 Virulence factor; Region: Virulence_fact; pfam13769 361100005425 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 361100005426 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 361100005427 Protein of unknown function, DUF393; Region: DUF393; cl01136 361100005428 Disulphide isomerase; Region: Disulph_isomer; pfam06491 361100005429 Brix domain; Region: Brix; cl00935 361100005430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100005431 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 361100005432 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 361100005433 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 361100005434 active site 361100005435 HIGH motif; other site 361100005436 KMSK motif region; other site 361100005437 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 361100005438 tRNA binding surface [nucleotide binding]; other site 361100005439 anticodon binding site; other site 361100005440 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100005441 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100005442 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100005443 binding surface 361100005444 TPR motif; other site 361100005445 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 361100005446 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39A; cd02549 361100005447 putative active site [active] 361100005448 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100005449 binding surface 361100005450 TPR motif; other site 361100005451 TPR repeat; Region: TPR_11; pfam13414 361100005452 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005453 binding surface 361100005454 TPR motif; other site 361100005455 Tetratricopeptide repeat; Region: TPR_16; pfam13432 361100005456 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005457 binding surface 361100005458 TPR motif; other site 361100005459 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005460 binding surface 361100005461 TPR motif; other site 361100005462 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005463 binding surface 361100005464 TPR motif; other site 361100005465 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005466 binding surface 361100005467 TPR motif; other site 361100005468 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100005469 binding surface 361100005470 TPR motif; other site 361100005471 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 361100005472 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 361100005473 HIGH motif; other site 361100005474 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 361100005475 active site 361100005476 KMSKS motif; other site 361100005477 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 361100005478 tRNA binding surface [nucleotide binding]; other site 361100005479 anticodon binding site; other site 361100005480 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 361100005481 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 361100005482 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100005483 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 361100005484 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 361100005485 Zn binding site [ion binding]; other site 361100005486 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 361100005487 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 361100005488 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100005489 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100005490 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 361100005491 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 361100005492 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 361100005493 homodimer interface [polypeptide binding]; other site 361100005494 motif 1; other site 361100005495 motif 2; other site 361100005496 active site 361100005497 motif 3; other site 361100005498 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 361100005499 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 361100005500 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 361100005501 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 361100005502 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 361100005503 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005504 motif II; other site 361100005505 Citrate transporter; Region: CitMHS; pfam03600 361100005506 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 361100005507 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 361100005508 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 361100005509 active site 361100005510 NAD binding site [chemical binding]; other site 361100005511 metal binding site [ion binding]; metal-binding site 361100005512 aspartate racemase; Region: asp_race; TIGR00035 361100005513 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 361100005514 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 361100005515 homodimer interaction site [polypeptide binding]; other site 361100005516 cofactor binding site; other site 361100005517 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100005518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005519 Coenzyme A binding pocket [chemical binding]; other site 361100005520 hypothetical protein; Validated; Region: PRK06769 361100005521 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005522 active site 361100005523 motif I; other site 361100005524 motif II; other site 361100005525 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100005526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005527 Coenzyme A binding pocket [chemical binding]; other site 361100005528 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100005529 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100005530 Walker A/P-loop; other site 361100005531 ATP binding site [chemical binding]; other site 361100005532 Q-loop/lid; other site 361100005533 ABC transporter signature motif; other site 361100005534 Walker B; other site 361100005535 D-loop; other site 361100005536 H-loop/switch region; other site 361100005537 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 361100005538 YpjP-like protein; Region: YpjP; pfam14005 361100005539 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 361100005540 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005541 motif II; other site 361100005542 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100005543 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100005544 active site 361100005545 metal binding site [ion binding]; metal-binding site 361100005546 Phosphotransferase enzyme family; Region: APH; pfam01636 361100005547 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 361100005548 active site 361100005549 substrate binding site [chemical binding]; other site 361100005550 ATP binding site [chemical binding]; other site 361100005551 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100005552 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 361100005553 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 361100005554 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 361100005555 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 361100005556 dimerization interface [polypeptide binding]; other site 361100005557 active site 361100005558 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 361100005559 folate binding site [chemical binding]; other site 361100005560 NADP+ binding site [chemical binding]; other site 361100005561 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 361100005562 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100005563 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 361100005564 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100005565 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100005566 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 361100005567 putative acyl-acceptor binding pocket; other site 361100005568 Haemolysin-III related; Region: HlyIII; cl03831 361100005569 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 361100005570 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 361100005571 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 361100005572 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 361100005573 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100005574 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 361100005575 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 361100005576 Cu(I) binding site [ion binding]; other site 361100005577 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 361100005578 putative dimer interface [polypeptide binding]; other site 361100005579 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 361100005580 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 361100005581 active site 361100005582 dimer interface [polypeptide binding]; other site 361100005583 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 361100005584 Ligand Binding Site [chemical binding]; other site 361100005585 Molecular Tunnel; other site 361100005586 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005587 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100005588 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 361100005589 siderophore binding site; other site 361100005590 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 361100005591 homodimer interface [polypeptide binding]; other site 361100005592 substrate-cofactor binding pocket; other site 361100005593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100005594 catalytic residue [active] 361100005595 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 361100005596 FMN binding site [chemical binding]; other site 361100005597 dimer interface [polypeptide binding]; other site 361100005598 Isochorismatase family; Region: Isochorismatase; pfam00857 361100005599 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 361100005600 catalytic triad [active] 361100005601 conserved cis-peptide bond; other site 361100005602 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 361100005603 nudix motif; other site 361100005604 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 361100005605 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 361100005606 putative dimer interface [polypeptide binding]; other site 361100005607 Mechanosensitive ion channel; Region: MS_channel; pfam00924 361100005608 GAF domain; Region: GAF_2; pfam13185 361100005609 GAF domain; Region: GAF; cl15785 361100005610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 361100005611 Histidine kinase; Region: HisKA_3; pfam07730 361100005612 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100005613 ATP binding site [chemical binding]; other site 361100005614 Mg2+ binding site [ion binding]; other site 361100005615 G-X-G motif; other site 361100005616 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100005617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100005618 active site 361100005619 phosphorylation site [posttranslational modification] 361100005620 intermolecular recognition site; other site 361100005621 dimerization interface [polypeptide binding]; other site 361100005622 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100005623 DNA binding residues [nucleotide binding] 361100005624 dimerization interface [polypeptide binding]; other site 361100005625 potential frameshift: common BLAST hit: gi|218897233|ref|YP_002445644.1| transcriptional regulator, RpiR family 361100005626 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 361100005627 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 361100005628 putative active site [active] 361100005629 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 361100005630 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 361100005631 NAD binding site [chemical binding]; other site 361100005632 substrate binding site [chemical binding]; other site 361100005633 catalytic Zn binding site [ion binding]; other site 361100005634 tetramer interface [polypeptide binding]; other site 361100005635 structural Zn binding site [ion binding]; other site 361100005636 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100005637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100005638 dimer interface [polypeptide binding]; other site 361100005639 conserved gate region; other site 361100005640 ABC-ATPase subunit interface; other site 361100005641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100005642 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100005643 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 361100005644 Erythromycin esterase; Region: Erythro_esteras; pfam05139 361100005645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005646 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 361100005647 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100005648 active site 361100005649 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100005650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005651 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100005652 putative substrate translocation pore; other site 361100005653 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 361100005654 putative active site [active] 361100005655 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 361100005656 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 361100005657 Walker A/P-loop; other site 361100005658 ATP binding site [chemical binding]; other site 361100005659 Q-loop/lid; other site 361100005660 ABC transporter signature motif; other site 361100005661 Walker B; other site 361100005662 D-loop; other site 361100005663 H-loop/switch region; other site 361100005664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100005665 dimer interface [polypeptide binding]; other site 361100005666 conserved gate region; other site 361100005667 ABC-ATPase subunit interface; other site 361100005668 NMT1-like family; Region: NMT1_2; cl15260 361100005669 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 361100005670 Spore germination protein; Region: Spore_permease; cl15802 361100005671 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100005672 Protein of unknown function (DUF524); Region: DUF524; pfam04411 361100005673 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 361100005674 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100005675 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 361100005676 Domain of unknown function DUF21; Region: DUF21; pfam01595 361100005677 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 361100005678 Transporter associated domain; Region: CorC_HlyC; cl08393 361100005679 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 361100005680 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100005681 ATP binding site [chemical binding]; other site 361100005682 Mg2+ binding site [ion binding]; other site 361100005683 G-X-G motif; other site 361100005684 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 361100005685 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 361100005686 hypothetical protein; Provisional; Region: PRK06917 361100005687 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100005688 inhibitor-cofactor binding pocket; inhibition site 361100005689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100005690 catalytic residue [active] 361100005691 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100005692 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100005693 acetylornithine deacetylase; Validated; Region: PRK06915 361100005694 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 361100005695 metal binding site [ion binding]; metal-binding site 361100005696 dimer interface [polypeptide binding]; other site 361100005697 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 361100005698 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005699 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 361100005700 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100005701 Walker A motif; other site 361100005702 ATP binding site [chemical binding]; other site 361100005703 Walker B motif; other site 361100005704 arginine finger; other site 361100005705 Helix-turn-helix domains; Region: HTH; cl00088 361100005706 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 361100005707 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100005708 FeS/SAM binding site; other site 361100005709 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 361100005710 YokU-like protein; Region: YokU; cl15819 361100005711 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 361100005712 Protein of unknown function (DUF3930); Region: DUF3930; pfam13067 361100005713 Protein of unknown function (DUF3930); Region: DUF3930; pfam13067 361100005714 YozD-like protein; Region: YozD; pfam14162 361100005715 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 361100005716 Catalytic domain of Protein Kinases; Region: PKc; cd00180 361100005717 active site 361100005718 ATP binding site [chemical binding]; other site 361100005719 substrate binding site [chemical binding]; other site 361100005720 activation loop (A-loop); other site 361100005721 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 361100005722 SpoOM protein; Region: Spo0M; pfam07070 361100005723 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 361100005724 active site 361100005725 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 361100005726 Cation efflux family; Region: Cation_efflux; cl00316 361100005727 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100005728 catalytic residues [active] 361100005729 Terminase small subunit; Region: Terminase_2; cl01513 361100005730 Protein of unknown function (DUF3956); Region: DUF3956; pfam13104 361100005731 CHRD domain; Region: CHRD; cl06473 361100005732 RNA polymerase sigma factor SigM; Provisional; Region: PRK09644 361100005733 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100005734 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100005735 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 361100005736 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 361100005737 Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal...; Region: TNF; cl00147 361100005738 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 361100005739 PPIC-type PPIASE domain; Region: Rotamase; cl08278 361100005740 YolD-like protein; Region: YolD; pfam08863 361100005741 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 361100005742 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 361100005743 Transglycosylase; Region: Transgly; cl07896 361100005744 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100005745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100005746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100005748 putative substrate translocation pore; other site 361100005749 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 361100005750 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 361100005751 dimer interface [polypeptide binding]; other site 361100005752 Citrate synthase; Region: Citrate_synt; pfam00285 361100005753 active site 361100005754 coenzyme A binding site [chemical binding]; other site 361100005755 citrylCoA binding site [chemical binding]; other site 361100005756 oxalacetate/citrate binding site [chemical binding]; other site 361100005757 catalytic triad [active] 361100005758 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 361100005759 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 361100005760 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 361100005761 tetramer interface [polypeptide binding]; other site 361100005762 active site 361100005763 Mg2+/Mn2+ binding site [ion binding]; other site 361100005764 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 361100005765 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100005766 active site 361100005767 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 361100005768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005769 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 361100005770 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 361100005771 tetrameric interface [polypeptide binding]; other site 361100005772 NAD binding site [chemical binding]; other site 361100005773 catalytic residues [active] 361100005774 LysE type translocator; Region: LysE; cl00565 361100005775 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 361100005776 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100005777 substrate binding site [chemical binding]; other site 361100005778 oxyanion hole (OAH) forming residues; other site 361100005779 trimer interface [polypeptide binding]; other site 361100005780 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 361100005781 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 361100005782 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 361100005783 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 361100005784 active site 361100005785 metal binding site [ion binding]; metal-binding site 361100005786 DNA binding site [nucleotide binding] 361100005787 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 361100005788 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 361100005789 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 361100005790 Walker A/P-loop; other site 361100005791 ATP binding site [chemical binding]; other site 361100005792 Q-loop/lid; other site 361100005793 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 361100005794 ABC transporter signature motif; other site 361100005795 Walker B; other site 361100005796 D-loop; other site 361100005797 H-loop/switch region; other site 361100005798 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100005799 dimerization interface [polypeptide binding]; other site 361100005800 putative DNA binding site [nucleotide binding]; other site 361100005801 putative Zn2+ binding site [ion binding]; other site 361100005802 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 361100005803 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 361100005804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005805 putative substrate translocation pore; other site 361100005806 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 361100005807 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 361100005808 putative NAD(P) binding site [chemical binding]; other site 361100005809 active site 361100005810 isochorismate synthase DhbC; Validated; Region: PRK06923 361100005811 chorismate binding enzyme; Region: Chorismate_bind; cl10555 361100005812 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 361100005813 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005814 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005815 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 361100005816 hydrophobic substrate binding pocket; other site 361100005817 Isochorismatase family; Region: Isochorismatase; pfam00857 361100005818 active site 361100005819 conserved cis-peptide bond; other site 361100005820 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100005821 peptide synthase; Provisional; Region: PRK12316 361100005822 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005823 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005824 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100005825 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 361100005826 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 361100005827 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005828 AMP-binding enzyme; Region: AMP-binding; cl15778 361100005829 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100005830 MbtH-like protein; Region: MbtH; cl01279 361100005831 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005832 putative transporter; Provisional; Region: PRK10504 361100005833 putative substrate translocation pore; other site 361100005834 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 361100005835 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 361100005836 Chorismate lyase; Region: Chor_lyase; cl01230 361100005837 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 361100005838 IHF dimer interface [polypeptide binding]; other site 361100005839 IHF - DNA interface [nucleotide binding]; other site 361100005840 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 361100005841 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100005842 DinB superfamily; Region: DinB_2; pfam12867 361100005843 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 361100005844 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 361100005845 active site 361100005846 catalytic triad [active] 361100005847 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100005848 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100005849 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 361100005850 metal binding triad [ion binding]; metal-binding site 361100005851 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 361100005852 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 361100005853 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100005854 RNA binding surface [nucleotide binding]; other site 361100005855 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 361100005856 probable active site [active] 361100005857 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 361100005858 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 361100005859 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 361100005860 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 361100005861 active site 361100005862 dimer interface [polypeptide binding]; other site 361100005863 motif 1; other site 361100005864 motif 2; other site 361100005865 motif 3; other site 361100005866 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 361100005867 anticodon binding site; other site 361100005868 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100005869 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100005870 Walker A/P-loop; other site 361100005871 ATP binding site [chemical binding]; other site 361100005872 Q-loop/lid; other site 361100005873 ABC transporter signature motif; other site 361100005874 Walker B; other site 361100005875 D-loop; other site 361100005876 H-loop/switch region; other site 361100005877 FtsX-like permease family; Region: FtsX; cl15850 361100005878 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005879 Transposase IS200 like; Region: Y1_Tnp; cl00848 361100005880 Probable transposase; Region: OrfB_IS605; pfam01385 361100005881 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100005882 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 361100005883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100005884 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 361100005885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100005886 pyruvate oxidase; Provisional; Region: PRK08611 361100005887 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 361100005888 PYR/PP interface [polypeptide binding]; other site 361100005889 dimer interface [polypeptide binding]; other site 361100005890 tetramer interface [polypeptide binding]; other site 361100005891 TPP binding site [chemical binding]; other site 361100005892 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 361100005893 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 361100005894 TPP-binding site [chemical binding]; other site 361100005895 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 361100005896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100005897 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 361100005898 active site 361100005899 dimerization interface [polypeptide binding]; other site 361100005900 Protein of unknown function (DUF2441); Region: DUF2441; pfam10386 361100005901 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005902 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100005903 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100005904 Helix-turn-helix domains; Region: HTH; cl00088 361100005905 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 361100005906 Protein of unknown function (DUF4021); Region: DUF4021; pfam13213 361100005907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005908 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005909 Coenzyme A binding pocket [chemical binding]; other site 361100005910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100005911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005912 Coenzyme A binding pocket [chemical binding]; other site 361100005913 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 361100005914 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 361100005915 putative acetyltransferase YhhY; Provisional; Region: PRK10140 361100005916 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100005917 Coenzyme A binding pocket [chemical binding]; other site 361100005918 EamA-like transporter family; Region: EamA; cl01037 361100005919 EamA-like transporter family; Region: EamA; cl01037 361100005920 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 361100005921 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100005922 non-specific DNA binding site [nucleotide binding]; other site 361100005923 salt bridge; other site 361100005924 sequence-specific DNA binding site [nucleotide binding]; other site 361100005925 Cupin domain; Region: Cupin_2; cl09118 361100005926 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 361100005927 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100005928 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100005929 protoporphyrinogen oxidase; Provisional; Region: PRK12416 361100005930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005931 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 361100005932 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100005933 S-adenosylmethionine binding site [chemical binding]; other site 361100005934 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100005935 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005936 Cold-inducible protein YdjO; Region: YdjO; pfam14169 361100005937 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100005938 DNA-binding site [nucleotide binding]; DNA binding site 361100005939 RNA-binding motif; other site 361100005940 CAAX protease self-immunity; Region: Abi; cl00558 361100005941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100005942 AAA domain; Region: AAA_18; pfam13238 361100005943 Arginase family; Region: Arginase; cl00306 361100005944 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005945 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100005946 active site 361100005947 motif I; other site 361100005948 motif II; other site 361100005949 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100005950 hypothetical protein; Provisional; Region: PRK06770 361100005951 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100005952 Helix-turn-helix domains; Region: HTH; cl00088 361100005953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100005954 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100005955 putative substrate translocation pore; other site 361100005956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100005957 Helix-turn-helix domains; Region: HTH; cl00088 361100005958 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100005959 dimerization interface [polypeptide binding]; other site 361100005960 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06728 361100005961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100005962 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 361100005963 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 361100005964 active site 361100005965 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 361100005966 Helix-turn-helix domains; Region: HTH; cl00088 361100005967 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100005968 dimerization interface [polypeptide binding]; other site 361100005969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 361100005970 MOSC domain; Region: MOSC; pfam03473 361100005971 3-alpha domain; Region: 3-alpha; pfam03475 361100005972 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100005973 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 361100005974 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 361100005975 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100005976 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100005977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100005978 Walker A/P-loop; other site 361100005979 ATP binding site [chemical binding]; other site 361100005980 Q-loop/lid; other site 361100005981 ABC transporter signature motif; other site 361100005982 Walker B; other site 361100005983 D-loop; other site 361100005984 H-loop/switch region; other site 361100005985 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100005986 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100005987 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 361100005988 Walker A/P-loop; other site 361100005989 ATP binding site [chemical binding]; other site 361100005990 Q-loop/lid; other site 361100005991 ABC transporter signature motif; other site 361100005992 Walker B; other site 361100005993 D-loop; other site 361100005994 H-loop/switch region; other site 361100005995 LysE type translocator; Region: LysE; cl00565 361100005996 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 361100005997 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100005998 non-specific DNA binding site [nucleotide binding]; other site 361100005999 salt bridge; other site 361100006000 sequence-specific DNA binding site [nucleotide binding]; other site 361100006001 Cupin domain; Region: Cupin_2; cl09118 361100006002 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 361100006003 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 361100006004 BclB C-terminal domain; Region: exospore_TM; TIGR03721 361100006005 Cupin domain; Region: Cupin_2; cl09118 361100006006 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 361100006007 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 361100006008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006009 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 361100006010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100006011 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100006012 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006013 S-adenosylmethionine binding site [chemical binding]; other site 361100006014 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 361100006015 Domain of unknown function (DUF3974); Region: DUF3974; pfam13120 361100006016 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 361100006017 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 361100006018 active site 361100006019 P-loop; other site 361100006020 phosphorylation site [posttranslational modification] 361100006021 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100006022 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 361100006023 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 361100006024 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 361100006025 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100006026 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 361100006027 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006028 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 361100006029 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100006030 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100006031 catalytic residue [active] 361100006032 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 361100006033 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 361100006034 tetramer interface [polypeptide binding]; other site 361100006035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006036 catalytic residue [active] 361100006037 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 361100006038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100006039 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 361100006040 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 361100006041 ATP binding site [chemical binding]; other site 361100006042 Mg++ binding site [ion binding]; other site 361100006043 motif III; other site 361100006044 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100006045 nucleotide binding region [chemical binding]; other site 361100006046 ATP-binding site [chemical binding]; other site 361100006047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100006048 Helix-turn-helix domains; Region: HTH; cl00088 361100006049 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100006050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 361100006051 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 361100006052 FtsX-like permease family; Region: FtsX; cl15850 361100006053 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 361100006054 FtsX-like permease family; Region: FtsX; cl15850 361100006055 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100006056 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100006057 Walker A/P-loop; other site 361100006058 ATP binding site [chemical binding]; other site 361100006059 Q-loop/lid; other site 361100006060 ABC transporter signature motif; other site 361100006061 Walker B; other site 361100006062 D-loop; other site 361100006063 H-loop/switch region; other site 361100006064 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100006065 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006066 S-adenosylmethionine binding site [chemical binding]; other site 361100006067 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 361100006068 dimer interface [polypeptide binding]; other site 361100006069 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100006070 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 361100006071 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 361100006072 dimer interface [polypeptide binding]; other site 361100006073 PYR/PP interface [polypeptide binding]; other site 361100006074 TPP binding site [chemical binding]; other site 361100006075 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 361100006076 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 361100006077 TPP-binding site [chemical binding]; other site 361100006078 dimer interface [polypeptide binding]; other site 361100006079 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100006080 Helix-turn-helix domains; Region: HTH; cl00088 361100006081 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100006082 catalytic core [active] 361100006083 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 361100006084 Toxin SpoIISA, type II toxin-antitoxin system; Region: SpoIISA_toxin; pfam14171 361100006085 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 361100006086 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 361100006087 metal binding site [ion binding]; metal-binding site 361100006088 dimer interface [polypeptide binding]; other site 361100006089 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 361100006090 active site 361100006091 catalytic triad [active] 361100006092 oxyanion hole [active] 361100006093 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 361100006094 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100006095 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100006096 DNA binding residues [nucleotide binding] 361100006097 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 361100006098 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100006099 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006100 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 361100006101 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100006102 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006103 beta-lactamase TEM; Provisional; Region: PRK15442 361100006104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006105 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 361100006106 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100006107 putative active site [active] 361100006108 putative metal binding site [ion binding]; other site 361100006109 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 361100006110 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 361100006111 Walker A/P-loop; other site 361100006112 ATP binding site [chemical binding]; other site 361100006113 Q-loop/lid; other site 361100006114 ABC transporter signature motif; other site 361100006115 Walker B; other site 361100006116 D-loop; other site 361100006117 H-loop/switch region; other site 361100006118 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100006119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100006120 Helix-turn-helix domains; Region: HTH; cl00088 361100006121 Protein of unknown function (DUF523); Region: DUF523; cl00733 361100006122 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 361100006123 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100006124 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 361100006125 FAD binding site [chemical binding]; other site 361100006126 homotetramer interface [polypeptide binding]; other site 361100006127 substrate binding pocket [chemical binding]; other site 361100006128 catalytic base [active] 361100006129 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 361100006130 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 361100006131 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100006132 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 361100006133 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 361100006134 carboxyltransferase (CT) interaction site; other site 361100006135 biotinylation site [posttranslational modification]; other site 361100006136 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 361100006137 active site 361100006138 catalytic residues [active] 361100006139 metal binding site [ion binding]; metal-binding site 361100006140 enoyl-CoA hydratase; Provisional; Region: PRK07657 361100006141 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100006142 substrate binding site [chemical binding]; other site 361100006143 oxyanion hole (OAH) forming residues; other site 361100006144 trimer interface [polypeptide binding]; other site 361100006145 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 361100006146 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 361100006147 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 361100006148 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 361100006149 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 361100006150 AMP-binding enzyme; Region: AMP-binding; cl15778 361100006151 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100006152 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100006153 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006154 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100006155 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100006156 DinB superfamily; Region: DinB_2; pfam12867 361100006157 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100006158 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100006160 dimer interface [polypeptide binding]; other site 361100006161 phosphorylation site [posttranslational modification] 361100006162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100006163 ATP binding site [chemical binding]; other site 361100006164 Mg2+ binding site [ion binding]; other site 361100006165 G-X-G motif; other site 361100006166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100006167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100006168 active site 361100006169 phosphorylation site [posttranslational modification] 361100006170 intermolecular recognition site; other site 361100006171 dimerization interface [polypeptide binding]; other site 361100006172 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100006173 DNA binding site [nucleotide binding] 361100006174 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 361100006175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100006176 Domain of unknown function (DUF3885); Region: DUF3885; pfam13021 361100006177 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 361100006178 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 361100006179 NADH(P)-binding; Region: NAD_binding_10; pfam13460 361100006180 NAD binding site [chemical binding]; other site 361100006181 substrate binding site [chemical binding]; other site 361100006182 putative active site [active] 361100006183 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100006184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006185 Coenzyme A binding pocket [chemical binding]; other site 361100006186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006187 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 361100006188 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100006189 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 361100006190 active site 361100006191 Zn binding site [ion binding]; other site 361100006192 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 361100006193 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 361100006194 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100006195 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 361100006196 putative hydrophobic ligand binding site [chemical binding]; other site 361100006197 Helix-turn-helix domains; Region: HTH; cl00088 361100006198 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100006199 transposase/IS protein; Provisional; Region: PRK09183 361100006200 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100006201 Walker A motif; other site 361100006202 ATP binding site [chemical binding]; other site 361100006203 Walker B motif; other site 361100006204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006205 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100006206 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 361100006207 DNA binding residues [nucleotide binding] 361100006208 drug binding residues [chemical binding]; other site 361100006209 dimer interface [polypeptide binding]; other site 361100006210 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100006211 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100006212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006213 putative substrate translocation pore; other site 361100006214 potential frameshift: common BLAST hit: gi|217960028|ref|YP_002338584.1| serine/threonine protein kinase 361100006215 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100006216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006217 S-adenosylmethionine binding site [chemical binding]; other site 361100006218 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 361100006219 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100006220 metal binding site [ion binding]; metal-binding site 361100006221 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100006222 active site 361100006223 ATP binding site [chemical binding]; other site 361100006224 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 361100006225 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 361100006226 active site 361100006227 Zn binding site [ion binding]; other site 361100006228 Protein of unknown function (DUF4030); Region: DUF4030; pfam13222 361100006229 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100006230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100006231 DNA-binding site [nucleotide binding]; DNA binding site 361100006232 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100006233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006234 homodimer interface [polypeptide binding]; other site 361100006235 catalytic residue [active] 361100006236 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 361100006237 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 361100006238 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 361100006239 putative NAD(P) binding site [chemical binding]; other site 361100006240 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100006241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006242 S-adenosylmethionine binding site [chemical binding]; other site 361100006243 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006244 S-adenosylmethionine binding site [chemical binding]; other site 361100006245 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 361100006246 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 361100006247 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 361100006248 active site 361100006249 HIGH motif; other site 361100006250 KMSKS motif; other site 361100006251 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 361100006252 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 361100006253 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100006254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100006255 active site 361100006256 phosphorylation site [posttranslational modification] 361100006257 intermolecular recognition site; other site 361100006258 dimerization interface [polypeptide binding]; other site 361100006259 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100006260 DNA binding site [nucleotide binding] 361100006261 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 361100006262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100006263 ATP binding site [chemical binding]; other site 361100006264 Mg2+ binding site [ion binding]; other site 361100006265 G-X-G motif; other site 361100006266 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100006267 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100006268 ABC transporter; Region: ABC_tran_2; pfam12848 361100006269 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100006270 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100006271 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100006272 Walker A/P-loop; other site 361100006273 ATP binding site [chemical binding]; other site 361100006274 Q-loop/lid; other site 361100006275 ABC transporter signature motif; other site 361100006276 Walker B; other site 361100006277 D-loop; other site 361100006278 H-loop/switch region; other site 361100006279 FtsX-like permease family; Region: FtsX; cl15850 361100006280 hypothetical protein; Provisional; Region: PRK06760; cl11698 361100006281 Protein of unknown function (DUF3914); Region: DUF3914; pfam13053 361100006282 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 361100006283 homoserine dehydrogenase; Validated; Region: PRK06813 361100006284 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 361100006285 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100006286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100006287 DNA-binding site [nucleotide binding]; DNA binding site 361100006288 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100006289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006290 homodimer interface [polypeptide binding]; other site 361100006291 catalytic residue [active] 361100006292 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 361100006293 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 361100006294 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100006295 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 361100006296 Helix-turn-helix domains; Region: HTH; cl00088 361100006297 Protein of unknown function (DUF3962); Region: DUF3962; pfam13111 361100006298 Domain of unknown function (DUF3893); Region: DUF3893; pfam13032 361100006299 Protein of unknown function (DUF3959); Region: DUF3959; pfam13105 361100006300 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 361100006301 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 361100006302 Protein of unknown function; Region: DUF3658; pfam12395 361100006303 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 361100006304 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100006305 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006306 putative substrate translocation pore; other site 361100006307 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006308 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 361100006309 trimer interface [polypeptide binding]; other site 361100006310 active site 361100006311 substrate binding site [chemical binding]; other site 361100006312 CoA binding site [chemical binding]; other site 361100006313 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 361100006314 Helix-turn-helix domains; Region: HTH; cl00088 361100006315 Cysteine dioxygenase type I; Region: CDO_I; cl15835 361100006316 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100006317 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100006318 active site 361100006319 motif I; other site 361100006320 motif II; other site 361100006321 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100006322 PAS domain S-box; Region: sensory_box; TIGR00229 361100006323 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100006324 putative active site [active] 361100006325 heme pocket [chemical binding]; other site 361100006326 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 361100006327 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100006328 dimer interface [polypeptide binding]; other site 361100006329 phosphorylation site [posttranslational modification] 361100006330 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100006331 ATP binding site [chemical binding]; other site 361100006332 Mg2+ binding site [ion binding]; other site 361100006333 G-X-G motif; other site 361100006334 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 361100006335 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100006336 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100006337 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006338 glycosyltransferase, MGT family; Region: MGT; TIGR01426 361100006339 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 361100006340 aspartate racemase; Region: asp_race; TIGR00035 361100006341 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100006342 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 361100006343 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 361100006344 Walker A/P-loop; other site 361100006345 ATP binding site [chemical binding]; other site 361100006346 Q-loop/lid; other site 361100006347 ABC transporter signature motif; other site 361100006348 Walker B; other site 361100006349 D-loop; other site 361100006350 H-loop/switch region; other site 361100006351 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 361100006352 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 361100006353 Walker A/P-loop; other site 361100006354 ATP binding site [chemical binding]; other site 361100006355 Q-loop/lid; other site 361100006356 ABC transporter signature motif; other site 361100006357 Walker B; other site 361100006358 D-loop; other site 361100006359 H-loop/switch region; other site 361100006360 Cobalt transport protein; Region: CbiQ; cl00463 361100006361 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100006362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100006363 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100006364 dimer interface [polypeptide binding]; other site 361100006365 phosphorylation site [posttranslational modification] 361100006366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100006367 ATP binding site [chemical binding]; other site 361100006368 Mg2+ binding site [ion binding]; other site 361100006369 G-X-G motif; other site 361100006370 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 361100006371 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100006372 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 361100006373 NAD(P) binding site [chemical binding]; other site 361100006374 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 361100006375 active site 361100006376 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 361100006377 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100006378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006379 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 361100006380 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 361100006381 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 361100006382 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 361100006383 classical (c) SDRs; Region: SDR_c; cd05233 361100006384 NAD(P) binding site [chemical binding]; other site 361100006385 active site 361100006386 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006387 putative substrate translocation pore; other site 361100006388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006389 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100006390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006391 Coenzyme A binding pocket [chemical binding]; other site 361100006392 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 361100006393 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 361100006394 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 361100006395 conserved cys residue [active] 361100006396 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg1; cd04777 361100006397 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100006398 DNA binding residues [nucleotide binding] 361100006399 putative dimer interface [polypeptide binding]; other site 361100006400 Trm112p-like protein; Region: Trm112p; cl01066 361100006401 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006402 S-adenosylmethionine binding site [chemical binding]; other site 361100006403 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100006404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006405 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006406 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 361100006407 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 361100006408 active site 361100006409 catalytic site [active] 361100006410 metal binding site [ion binding]; metal-binding site 361100006411 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 361100006412 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100006413 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100006414 DNA-binding site [nucleotide binding]; DNA binding site 361100006415 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100006416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006417 homodimer interface [polypeptide binding]; other site 361100006418 catalytic residue [active] 361100006419 EamA-like transporter family; Region: EamA; cl01037 361100006420 EamA-like transporter family; Region: EamA; cl01037 361100006421 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006422 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 361100006423 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100006424 nudix motif; other site 361100006425 probable heterocycle-containing bacteriocin, BA_2677 family; Region: B_an_ocin; TIGR03601 361100006426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006427 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 361100006428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006429 putative substrate translocation pore; other site 361100006430 Cadmium resistance transporter; Region: Cad; pfam03596 361100006431 cadmium resistance transporter (or sequestration) family protein; Region: cad; TIGR00779 361100006432 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100006433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006434 Coenzyme A binding pocket [chemical binding]; other site 361100006435 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 361100006436 nudix motif; other site 361100006437 DNA polymerase III subunit beta; Validated; Region: PRK06673 361100006438 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 361100006439 putative DNA binding surface [nucleotide binding]; other site 361100006440 dimer interface [polypeptide binding]; other site 361100006441 beta-clamp/clamp loader binding surface; other site 361100006442 beta-clamp/translesion DNA polymerase binding surface; other site 361100006443 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 361100006444 putative active site [active] 361100006445 nucleotide binding site [chemical binding]; other site 361100006446 nudix motif; other site 361100006447 putative metal binding site [ion binding]; other site 361100006448 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 361100006449 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100006450 DNA-directed RNA polymerase subunit A''; Provisional; Region: PRK14898 361100006451 translation initiation factor IF-2; Provisional; Region: PRK14845 361100006452 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 361100006453 homotrimer interaction site [polypeptide binding]; other site 361100006454 putative active site [active] 361100006455 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 361100006456 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 361100006457 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 361100006458 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 361100006459 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100006460 YxiJ-like protein; Region: YxiJ; pfam14176 361100006461 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 361100006462 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 361100006463 active site 361100006464 nucleophile elbow; other site 361100006465 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 361100006466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006467 Coenzyme A binding pocket [chemical binding]; other site 361100006468 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100006469 DinB superfamily; Region: DinB_2; pfam12867 361100006470 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100006471 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006472 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 361100006473 Bacitracin resistance protein BacA; Region: BacA; cl00858 361100006474 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 361100006475 GIY-YIG motif/motif A; other site 361100006476 active site 361100006477 catalytic site [active] 361100006478 putative DNA binding site [nucleotide binding]; other site 361100006479 metal binding site [ion binding]; metal-binding site 361100006480 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006481 Coenzyme A binding pocket [chemical binding]; other site 361100006482 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100006483 active site 361100006484 ATP binding site [chemical binding]; other site 361100006485 substrate binding site [chemical binding]; other site 361100006486 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 361100006487 nudix motif; other site 361100006488 FAD dependent oxidoreductase; Region: DAO; pfam01266 361100006489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006490 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 361100006491 N-acetyltransferase; Region: Acetyltransf_2; cl00949 361100006492 MepB protein; Region: MepB; cl01985 361100006493 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 361100006494 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 361100006495 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100006496 motif II; other site 361100006497 DinB superfamily; Region: DinB_2; pfam12867 361100006498 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100006499 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 361100006500 active site 361100006501 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 361100006502 carbohydrate binding site [chemical binding]; other site 361100006503 pullulanase, type I; Region: pulA_typeI; TIGR02104 361100006504 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 361100006505 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 361100006506 Ca binding site [ion binding]; other site 361100006507 active site 361100006508 catalytic site [active] 361100006509 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 361100006510 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100006511 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 361100006512 active site 361100006513 Zn binding site [ion binding]; other site 361100006514 Putative zinc-finger; Region: zf-HC2; cl15806 361100006515 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 361100006516 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 361100006517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100006518 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100006519 DNA binding residues [nucleotide binding] 361100006520 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100006521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12907 361100006522 SecY translocase; Region: SecY; pfam00344 361100006523 hypothetical protein; Validated; Region: PRK06672 361100006524 DnaA N-terminal domain; Region: DnaA_N; pfam11638 361100006525 DnaA N-terminal domain; Region: DnaA_N; pfam11638 361100006526 DnaA N-terminal domain; Region: DnaA_N; pfam11638 361100006527 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 361100006528 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100006529 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 361100006530 Predicted membrane protein [Function unknown]; Region: COG4129 361100006531 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 361100006532 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006533 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 361100006534 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 361100006535 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 361100006536 germination protein YpeB; Region: spore_YpeB; TIGR02889 361100006537 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 361100006538 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 361100006539 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 361100006540 Protein of unknown function (DUF3889); Region: DUF3889; pfam13028 361100006541 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100006542 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 361100006543 Putative cyclase; Region: Cyclase; cl00814 361100006544 kynureninase; Region: kynureninase; TIGR01814 361100006545 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100006546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100006547 catalytic residue [active] 361100006548 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100006549 Helix-turn-helix domains; Region: HTH; cl00088 361100006550 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100006551 nudix motif; other site 361100006552 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 361100006553 hydrophobic ligand binding site; other site 361100006554 Protein of unknown function (DUF3977); Region: DUF3977; pfam13122 361100006555 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 361100006556 GAF domain; Region: GAF; cl15785 361100006557 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100006558 Walker A motif; other site 361100006559 ATP binding site [chemical binding]; other site 361100006560 Walker B motif; other site 361100006561 arginine finger; other site 361100006562 Helix-turn-helix domains; Region: HTH; cl00088 361100006563 NIPSNAP; Region: NIPSNAP; pfam07978 361100006564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 361100006565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006566 Coenzyme A binding pocket [chemical binding]; other site 361100006567 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 361100006568 Helix-turn-helix domains; Region: HTH; cl00088 361100006569 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100006570 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 361100006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006572 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100006573 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 361100006574 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 361100006575 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 361100006576 E3 interaction surface; other site 361100006577 lipoyl attachment site [posttranslational modification]; other site 361100006578 e3 binding domain; Region: E3_binding; pfam02817 361100006579 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 361100006580 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 361100006581 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 361100006582 alpha subunit interface [polypeptide binding]; other site 361100006583 TPP binding site [chemical binding]; other site 361100006584 heterodimer interface [polypeptide binding]; other site 361100006585 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100006586 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 361100006587 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 361100006588 tetramer interface [polypeptide binding]; other site 361100006589 TPP-binding site [chemical binding]; other site 361100006590 heterodimer interface [polypeptide binding]; other site 361100006591 phosphorylation loop region [posttranslational modification] 361100006592 DinB superfamily; Region: DinB_2; pfam12867 361100006593 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100006594 short chain dehydrogenase; Provisional; Region: PRK06914 361100006595 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 361100006596 NADP binding site [chemical binding]; other site 361100006597 active site 361100006598 steroid binding site; other site 361100006599 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 361100006600 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 361100006601 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 361100006602 nudix motif; other site 361100006603 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 361100006604 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100006605 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 361100006606 nucleotide binding site/active site [active] 361100006607 HIT family signature motif; other site 361100006608 catalytic residue [active] 361100006609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100006610 dimer interface [polypeptide binding]; other site 361100006611 conserved gate region; other site 361100006612 putative PBP binding loops; other site 361100006613 ABC-ATPase subunit interface; other site 361100006614 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 361100006615 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 361100006616 Walker A/P-loop; other site 361100006617 ATP binding site [chemical binding]; other site 361100006618 Q-loop/lid; other site 361100006619 ABC transporter signature motif; other site 361100006620 Walker B; other site 361100006621 D-loop; other site 361100006622 H-loop/switch region; other site 361100006623 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 361100006624 NMT1-like family; Region: NMT1_2; cl15260 361100006625 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 361100006626 Clp protease; Region: CLP_protease; pfam00574 361100006627 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 361100006628 oligomer interface [polypeptide binding]; other site 361100006629 active site residues [active] 361100006630 RNA polymerase factor sigma-70; Validated; Region: PRK06704 361100006631 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100006632 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100006633 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 361100006634 catalytic loop [active] 361100006635 iron binding site [ion binding]; other site 361100006636 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 361100006637 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100006638 active site 361100006639 dimer interface [polypeptide binding]; other site 361100006640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006641 Coenzyme A binding pocket [chemical binding]; other site 361100006642 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 361100006643 glycosyltransferase, MGT family; Region: MGT; TIGR01426 361100006644 active site 361100006645 TDP-binding site; other site 361100006646 acceptor substrate-binding pocket; other site 361100006647 homodimer interface [polypeptide binding]; other site 361100006648 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 361100006649 topology modulation protein; Reviewed; Region: PRK08118 361100006650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100006651 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 361100006652 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006653 S-adenosylmethionine binding site [chemical binding]; other site 361100006654 Protein of unknown function (DUF419); Region: DUF419; cl15265 361100006655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006656 Coenzyme A binding pocket [chemical binding]; other site 361100006657 S-layer homology domain; Region: SLH; pfam00395 361100006658 S-layer homology domain; Region: SLH; pfam00395 361100006659 S-layer homology domain; Region: SLH; pfam00395 361100006660 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100006661 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 361100006662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006663 Coenzyme A binding pocket [chemical binding]; other site 361100006664 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 361100006665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006666 Coenzyme A binding pocket [chemical binding]; other site 361100006667 Helix-turn-helix domains; Region: HTH; cl00088 361100006668 Protein of unknown function (DUF952); Region: DUF952; cl01393 361100006669 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 361100006670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100006671 Family description; Region: UvrD_C_2; cl15862 361100006672 CAAX protease self-immunity; Region: Abi; cl00558 361100006673 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006674 S-adenosylmethionine binding site [chemical binding]; other site 361100006675 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 361100006676 putative active site pocket [active] 361100006677 dimerization interface [polypeptide binding]; other site 361100006678 putative catalytic residue [active] 361100006679 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 361100006680 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100006681 ATP binding site [chemical binding]; other site 361100006682 putative Mg++ binding site [ion binding]; other site 361100006683 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100006684 nucleotide binding region [chemical binding]; other site 361100006685 ATP-binding site [chemical binding]; other site 361100006686 RQC domain; Region: RQC; cl09632 361100006687 HRDC domain; Region: HRDC; cl02578 361100006688 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 361100006689 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 361100006690 active site 361100006691 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 361100006692 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 361100006693 active site 361100006694 metal binding site [ion binding]; metal-binding site 361100006695 N-acetylmuramoyl-l-alanine amidase; Region: Amidase02_C; pfam12123 361100006696 Protein of unknown function (DUF4017); Region: DUF4017; pfam13209 361100006697 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 361100006698 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 361100006699 active site 361100006700 Zn binding site [ion binding]; other site 361100006701 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 361100006702 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 361100006703 DHHA2 domain; Region: DHHA2; pfam02833 361100006704 Chitin binding domain; Region: Chitin_bind_3; cl03871 361100006705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100006706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006707 Coenzyme A binding pocket [chemical binding]; other site 361100006708 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100006709 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 361100006710 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100006711 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100006712 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 361100006713 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 361100006714 NAD(P) binding site [chemical binding]; other site 361100006715 catalytic residues [active] 361100006716 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 361100006717 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 361100006718 inhibitor site; inhibition site 361100006719 active site 361100006720 dimer interface [polypeptide binding]; other site 361100006721 catalytic residue [active] 361100006722 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 361100006723 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 361100006724 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 361100006725 FAD dependent oxidoreductase; Region: DAO; pfam01266 361100006726 sensory histidine kinase AtoS; Provisional; Region: PRK11360 361100006727 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100006728 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 361100006729 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100006730 Walker A motif; other site 361100006731 ATP binding site [chemical binding]; other site 361100006732 Walker B motif; other site 361100006733 arginine finger; other site 361100006734 Helix-turn-helix domains; Region: HTH; cl00088 361100006735 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 361100006736 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 361100006737 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 361100006738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006739 Protein of unknown function (DUF2653); Region: DUF2653; pfam10850 361100006740 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 361100006741 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 361100006742 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100006743 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 361100006744 DltD N-terminal region; Region: DltD_N; pfam04915 361100006745 DltD central region; Region: DltD_M; pfam04918 361100006746 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 361100006747 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100006748 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006749 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100006750 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100006751 peptide binding site [polypeptide binding]; other site 361100006752 NlpC/P60 family; Region: NLPC_P60; cl11438 361100006753 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 361100006754 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 361100006755 active site 361100006756 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 361100006757 Septum formation initiator; Region: DivIC; cl11433 361100006758 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 361100006759 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 361100006760 conserved cys residue [active] 361100006761 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 361100006762 active site 361100006763 catalytic motif [active] 361100006764 Zn binding site [ion binding]; other site 361100006765 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006766 S-adenosylmethionine binding site [chemical binding]; other site 361100006767 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 361100006768 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 361100006769 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100006770 dimerization interface [polypeptide binding]; other site 361100006771 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100006772 dimer interface [polypeptide binding]; other site 361100006773 phosphorylation site [posttranslational modification] 361100006774 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100006775 ATP binding site [chemical binding]; other site 361100006776 Mg2+ binding site [ion binding]; other site 361100006777 G-X-G motif; other site 361100006778 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100006779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100006780 active site 361100006781 phosphorylation site [posttranslational modification] 361100006782 intermolecular recognition site; other site 361100006783 dimerization interface [polypeptide binding]; other site 361100006784 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100006785 DNA binding site [nucleotide binding] 361100006786 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100006787 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Validated; Region: PRK06698 361100006788 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100006789 motif II; other site 361100006790 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 361100006791 5'-methylthioadenosine nucleosidase; Region: PLN02584 361100006792 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 361100006793 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 361100006794 Zn binding site [ion binding]; other site 361100006795 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 361100006796 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 361100006797 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 361100006798 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 361100006799 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006800 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006802 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100006803 putative substrate translocation pore; other site 361100006804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006805 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 361100006806 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 361100006807 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 361100006808 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 361100006809 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 361100006810 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 361100006811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100006813 putative substrate translocation pore; other site 361100006814 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 361100006815 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 361100006816 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 361100006817 active site 361100006818 Protein of unknown function (DUF3970); Region: DUF3970; pfam13113 361100006819 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100006820 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100006821 S-adenosylmethionine binding site [chemical binding]; other site 361100006822 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100006823 putative substrate translocation pore; other site 361100006824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100006825 aspartate aminotransferase; Provisional; Region: PRK07681 361100006826 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100006827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006828 homodimer interface [polypeptide binding]; other site 361100006829 catalytic residue [active] 361100006830 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 361100006831 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100006832 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 361100006833 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 361100006834 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 361100006835 Protein of unknown function (DUF4052); Region: DUF4052; pfam13261 361100006836 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 361100006837 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 361100006838 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 361100006839 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 361100006840 Domain of unknown function DUF20; Region: UPF0118; pfam01594 361100006841 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 361100006842 HNH endonuclease; Region: HNH_5; pfam14279 361100006843 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 361100006844 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 361100006845 active site 361100006846 dimer interface [polypeptide binding]; other site 361100006847 non-prolyl cis peptide bond; other site 361100006848 insertion regions; other site 361100006849 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100006850 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 361100006851 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100006852 substrate binding pocket [chemical binding]; other site 361100006853 membrane-bound complex binding site; other site 361100006854 hinge residues; other site 361100006855 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 361100006856 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 361100006857 Walker A/P-loop; other site 361100006858 ATP binding site [chemical binding]; other site 361100006859 Q-loop/lid; other site 361100006860 ABC transporter signature motif; other site 361100006861 Walker B; other site 361100006862 D-loop; other site 361100006863 H-loop/switch region; other site 361100006864 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100006865 Helix-turn-helix domains; Region: HTH; cl00088 361100006866 Protein of unknown function (DUF402); Region: DUF402; cl00979 361100006867 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 361100006868 nudix motif; other site 361100006869 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100006870 binding surface 361100006871 TPR motif; other site 361100006872 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 361100006873 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; cl01051 361100006874 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 361100006875 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006876 EamA-like transporter family; Region: EamA; cl01037 361100006877 DinB superfamily; Region: DinB_2; pfam12867 361100006878 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100006879 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 361100006880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100006881 Coenzyme A binding pocket [chemical binding]; other site 361100006882 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100006883 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006884 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 361100006885 active site 361100006886 NTP binding site [chemical binding]; other site 361100006887 metal binding triad [ion binding]; metal-binding site 361100006888 antibiotic binding site [chemical binding]; other site 361100006889 A new structural DNA glycosylase; Region: AlkD_like; cd06561 361100006890 active site 361100006891 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 361100006892 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 361100006893 NodB motif; other site 361100006894 active site 361100006895 catalytic site [active] 361100006896 Zn binding site [ion binding]; other site 361100006897 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 361100006898 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 361100006899 active site 361100006900 P-loop; other site 361100006901 phosphorylation site [posttranslational modification] 361100006902 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 361100006903 Helix-turn-helix domains; Region: HTH; cl00088 361100006904 Helix-turn-helix domains; Region: HTH; cl00088 361100006905 PRD domain; Region: PRD; cl15445 361100006906 PRD domain; Region: PRD; cl15445 361100006907 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 361100006908 active site 361100006909 P-loop; other site 361100006910 phosphorylation site [posttranslational modification] 361100006911 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 361100006912 active site 361100006913 phosphorylation site [posttranslational modification] 361100006914 Integral membrane protein TerC family; Region: TerC; cl10468 361100006915 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 361100006916 Sulfatase; Region: Sulfatase; cl10460 361100006917 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 361100006918 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100006919 Walker A/P-loop; other site 361100006920 ATP binding site [chemical binding]; other site 361100006921 Q-loop/lid; other site 361100006922 ABC transporter signature motif; other site 361100006923 Walker B; other site 361100006924 D-loop; other site 361100006925 H-loop/switch region; other site 361100006926 ABC transporter; Region: ABC_tran_2; pfam12848 361100006927 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100006928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100006929 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 361100006930 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 361100006931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100006932 Helix-turn-helix domains; Region: HTH; cl00088 361100006933 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006934 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 361100006935 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 361100006936 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 361100006937 active site 361100006938 hinge; other site 361100006939 prephenate dehydrogenase; Validated; Region: PRK06545 361100006940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006941 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 361100006942 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 361100006943 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100006944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100006945 homodimer interface [polypeptide binding]; other site 361100006946 catalytic residue [active] 361100006947 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 361100006948 Tetramer interface [polypeptide binding]; other site 361100006949 active site 361100006950 FMN-binding site [chemical binding]; other site 361100006951 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 361100006952 Chorismate mutase type II; Region: CM_2; cl00693 361100006953 NeuB family; Region: NeuB; cl00496 361100006954 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 361100006955 Domain of unknown function (DUF4020); Region: DUF4020; pfam13212 361100006956 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 361100006957 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100006958 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100006959 Isochorismatase family; Region: Isochorismatase; pfam00857 361100006960 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100006961 catalytic triad [active] 361100006962 conserved cis-peptide bond; other site 361100006963 YfzA-like protein; Region: YfzA; pfam14118 361100006964 Bacterial SH3 domain; Region: SH3_3; cl02551 361100006965 Bacterial SH3 domain; Region: SH3_3; cl02551 361100006966 3D domain; Region: 3D; cl01439 361100006967 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 361100006968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100006969 Predicted dehydrogenase [General function prediction only]; Region: COG0579 361100006970 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 361100006971 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 361100006972 ligand binding site [chemical binding]; other site 361100006973 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 361100006974 TM-ABC transporter signature motif; other site 361100006975 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 361100006976 TM-ABC transporter signature motif; other site 361100006977 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 361100006978 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 361100006979 Walker A/P-loop; other site 361100006980 ATP binding site [chemical binding]; other site 361100006981 Q-loop/lid; other site 361100006982 ABC transporter signature motif; other site 361100006983 Walker B; other site 361100006984 D-loop; other site 361100006985 H-loop/switch region; other site 361100006986 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 361100006987 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 361100006988 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 361100006989 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 361100006990 Autoinducer-2 kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 361100006991 putative N- and C-terminal domain interface [polypeptide binding]; other site 361100006992 putative active site [active] 361100006993 putative MgATP binding site [chemical binding]; other site 361100006994 catalytic site [active] 361100006995 metal binding site [ion binding]; metal-binding site 361100006996 putative carbohydrate binding site [chemical binding]; other site 361100006997 Cupin domain; Region: Cupin_2; cl09118 361100006998 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 361100006999 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 361100007000 putative active site; other site 361100007001 catalytic residue [active] 361100007002 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100007003 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 361100007004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007005 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100007006 putative substrate translocation pore; other site 361100007007 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100007008 putative DNA binding site [nucleotide binding]; other site 361100007009 putative Zn2+ binding site [ion binding]; other site 361100007010 nucleoside transporter; Region: nupC; TIGR00804 361100007011 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100007012 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100007013 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 361100007014 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 361100007015 putative catalytic cysteine [active] 361100007016 gamma-glutamyl kinase; Provisional; Region: PRK05429 361100007017 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 361100007018 nucleotide binding site [chemical binding]; other site 361100007019 homotetrameric interface [polypeptide binding]; other site 361100007020 putative phosphate binding site [ion binding]; other site 361100007021 putative allosteric binding site; other site 361100007022 PUA domain; Region: PUA; cl00607 361100007023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007024 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 361100007025 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 361100007026 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 361100007027 putative metal binding site [ion binding]; other site 361100007028 putative dimer interface [polypeptide binding]; other site 361100007029 Transcriptional regulator [Transcription]; Region: IclR; COG1414 361100007030 Helix-turn-helix domains; Region: HTH; cl00088 361100007031 Bacterial transcriptional regulator; Region: IclR; pfam01614 361100007032 S-methylmethionine transporter; Provisional; Region: PRK11387 361100007033 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 361100007034 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 361100007035 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 361100007036 putative di-iron ligands [ion binding]; other site 361100007037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 361100007038 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 361100007039 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 361100007040 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 361100007041 dimer interface [polypeptide binding]; other site 361100007042 active site 361100007043 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 361100007044 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100007045 Protein of unknown function (DUF3887); Region: DUF3887; pfam13026 361100007046 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 361100007047 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 361100007048 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 361100007049 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 361100007050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 361100007051 active site 361100007052 phosphorylation site [posttranslational modification] 361100007053 intermolecular recognition site; other site 361100007054 dimerization interface [polypeptide binding]; other site 361100007055 LytTr DNA-binding domain; Region: LytTR; cl04498 361100007056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100007057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100007058 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007059 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100007060 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100007061 active site 361100007062 metal binding site [ion binding]; metal-binding site 361100007063 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 361100007064 Helix-turn-helix domains; Region: HTH; cl00088 361100007065 MoxR-like ATPases [General function prediction only]; Region: COG0714 361100007066 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100007067 Walker A motif; other site 361100007068 ATP binding site [chemical binding]; other site 361100007069 Walker B motif; other site 361100007070 arginine finger; other site 361100007071 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 361100007072 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 361100007073 Domain of unknown function (DUF4018); Region: DUF4018; pfam13210 361100007074 proline/glycine betaine transporter; Provisional; Region: PRK10642 361100007075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007076 putative substrate translocation pore; other site 361100007077 acetylornithine aminotransferase; Provisional; Region: PRK02627 361100007078 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100007079 inhibitor-cofactor binding pocket; inhibition site 361100007080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100007081 catalytic residue [active] 361100007082 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 361100007083 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 361100007084 tetramer interface [polypeptide binding]; other site 361100007085 heme binding pocket [chemical binding]; other site 361100007086 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 361100007087 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100007088 dimer interface [polypeptide binding]; other site 361100007089 conserved gate region; other site 361100007090 putative PBP binding loops; other site 361100007091 ABC-ATPase subunit interface; other site 361100007092 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 361100007093 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 361100007094 Walker A/P-loop; other site 361100007095 ATP binding site [chemical binding]; other site 361100007096 Q-loop/lid; other site 361100007097 ABC transporter signature motif; other site 361100007098 Walker B; other site 361100007099 D-loop; other site 361100007100 H-loop/switch region; other site 361100007101 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 361100007102 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100007103 membrane-bound complex binding site; other site 361100007104 hinge residues; other site 361100007105 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 361100007106 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100007107 Helix-turn-helix domains; Region: HTH; cl00088 361100007108 adenine deaminase; Region: ade; TIGR01178 361100007109 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 361100007110 active site 361100007111 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 361100007112 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 361100007113 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100007114 Protein of unknown function (DUF3902); Region: DUF3902; pfam13042 361100007115 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 361100007116 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 361100007117 MoxR-like ATPases [General function prediction only]; Region: COG0714 361100007118 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100007119 Walker A motif; other site 361100007120 ATP binding site [chemical binding]; other site 361100007121 Walker B motif; other site 361100007122 arginine finger; other site 361100007123 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 361100007124 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 361100007125 dimer interface [polypeptide binding]; other site 361100007126 FMN binding site [chemical binding]; other site 361100007127 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100007128 Helix-turn-helix domains; Region: HTH; cl00088 361100007129 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 361100007130 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 361100007131 G1 box; other site 361100007132 putative GEF interaction site [polypeptide binding]; other site 361100007133 GTP/Mg2+ binding site [chemical binding]; other site 361100007134 Switch I region; other site 361100007135 G2 box; other site 361100007136 G3 box; other site 361100007137 Switch II region; other site 361100007138 G4 box; other site 361100007139 G5 box; other site 361100007140 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 361100007141 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 361100007142 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 361100007143 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 361100007144 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 361100007145 nudix motif; other site 361100007146 YfzA-like protein; Region: YfzA; pfam14118 361100007147 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100007148 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100007149 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100007150 Walker A/P-loop; other site 361100007151 ATP binding site [chemical binding]; other site 361100007152 Q-loop/lid; other site 361100007153 ABC transporter signature motif; other site 361100007154 Walker B; other site 361100007155 D-loop; other site 361100007156 H-loop/switch region; other site 361100007157 Predicted transcriptional regulators [Transcription]; Region: COG1725 361100007158 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100007159 DNA-binding site [nucleotide binding]; DNA binding site 361100007160 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 361100007161 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 361100007162 putative NAD(P) binding site [chemical binding]; other site 361100007163 active site 361100007164 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100007165 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100007166 Walker A/P-loop; other site 361100007167 ATP binding site [chemical binding]; other site 361100007168 Q-loop/lid; other site 361100007169 ABC transporter signature motif; other site 361100007170 Walker B; other site 361100007171 D-loop; other site 361100007172 H-loop/switch region; other site 361100007173 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100007174 FtsX-like permease family; Region: FtsX; cl15850 361100007175 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100007176 FtsX-like permease family; Region: FtsX; cl15850 361100007177 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100007178 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100007179 Walker A/P-loop; other site 361100007180 ATP binding site [chemical binding]; other site 361100007181 Q-loop/lid; other site 361100007182 ABC transporter signature motif; other site 361100007183 Walker B; other site 361100007184 D-loop; other site 361100007185 H-loop/switch region; other site 361100007186 FtsX-like permease family; Region: FtsX; cl15850 361100007187 FtsX-like permease family; Region: FtsX; cl15850 361100007188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100007189 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 361100007190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100007191 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100007192 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 361100007193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100007194 Coenzyme A binding pocket [chemical binding]; other site 361100007195 Domain of unknown function (DUF3980); Region: DUF3980; pfam13140 361100007196 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 361100007197 nudix motif; other site 361100007198 EamA-like transporter family; Region: EamA; cl01037 361100007199 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100007200 EamA-like transporter family; Region: EamA; cl01037 361100007201 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100007202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100007203 DNA-binding site [nucleotide binding]; DNA binding site 361100007204 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100007205 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100007206 homodimer interface [polypeptide binding]; other site 361100007207 catalytic residue [active] 361100007208 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 361100007209 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 361100007210 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100007211 phosphorylation site [posttranslational modification] 361100007212 dimer interface [polypeptide binding]; other site 361100007213 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100007214 ATP binding site [chemical binding]; other site 361100007215 Mg2+ binding site [ion binding]; other site 361100007216 G-X-G motif; other site 361100007217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100007218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100007219 active site 361100007220 phosphorylation site [posttranslational modification] 361100007221 intermolecular recognition site; other site 361100007222 dimerization interface [polypeptide binding]; other site 361100007223 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100007224 DNA binding site [nucleotide binding] 361100007225 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100007226 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 361100007227 uridine kinase; Validated; Region: PRK06696 361100007228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100007229 active site 361100007230 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100007231 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 361100007232 active site 361100007233 metal binding site [ion binding]; metal-binding site 361100007234 Phosphotransferase enzyme family; Region: APH; pfam01636 361100007235 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100007236 active site 361100007237 substrate binding site [chemical binding]; other site 361100007238 ATP binding site [chemical binding]; other site 361100007239 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100007240 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 361100007241 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 361100007242 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007243 lysine transporter; Provisional; Region: PRK10836 361100007244 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 361100007245 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 361100007246 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100007247 DNA binding residues [nucleotide binding] 361100007248 dimer interface [polypeptide binding]; other site 361100007249 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 361100007250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100007251 transposase/IS protein; Provisional; Region: PRK09183 361100007252 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100007253 Walker A motif; other site 361100007254 ATP binding site [chemical binding]; other site 361100007255 Walker B motif; other site 361100007256 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 361100007257 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100007258 Cache domain; Region: Cache_2; cl07034 361100007259 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 361100007260 putative active site [active] 361100007261 nucleotide binding site [chemical binding]; other site 361100007262 nudix motif; other site 361100007263 putative metal binding site [ion binding]; other site 361100007264 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100007265 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 361100007266 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100007267 Catalytic site [active] 361100007268 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 361100007269 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100007270 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100007271 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100007272 NAD-dependent deacetylase; Provisional; Region: PRK00481 361100007273 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 361100007274 NAD+ binding site [chemical binding]; other site 361100007275 substrate binding site [chemical binding]; other site 361100007276 Zn binding site [ion binding]; other site 361100007277 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 361100007278 putative substrate binding pocket [chemical binding]; other site 361100007279 AC domain interface; other site 361100007280 catalytic triad [active] 361100007281 AB domain interface; other site 361100007282 interchain disulfide; other site 361100007283 Protein of unknown function (DUF979); Region: DUF979; cl01572 361100007284 Protein of unknown function (DUF969); Region: DUF969; cl01573 361100007285 LamB/YcsF family; Region: LamB_YcsF; cl00664 361100007286 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 361100007287 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 361100007288 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 361100007289 Transcriptional regulator [Transcription]; Region: IclR; COG1414 361100007290 Helix-turn-helix domains; Region: HTH; cl00088 361100007291 Bacterial transcriptional regulator; Region: IclR; pfam01614 361100007292 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 361100007293 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100007294 Catalytic site [active] 361100007295 CutC family; Region: CutC; cl01218 361100007296 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 361100007297 stage II sporulation protein P; Region: spore_II_P; TIGR02867 361100007298 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100007299 dimerization interface [polypeptide binding]; other site 361100007300 putative DNA binding site [nucleotide binding]; other site 361100007301 putative Zn2+ binding site [ion binding]; other site 361100007302 DinB superfamily; Region: DinB_2; pfam12867 361100007303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007304 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100007305 putative substrate translocation pore; other site 361100007306 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100007307 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 361100007308 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 361100007309 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 361100007310 putative active site [active] 361100007311 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100007312 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 361100007314 Nucleoside recognition; Region: Gate; cl00486 361100007315 S-layer homology domain; Region: SLH; pfam00395 361100007316 S-layer homology domain; Region: SLH; pfam00395 361100007317 S-layer homology domain; Region: SLH; pfam00395 361100007318 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 361100007319 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 361100007320 putative active site [active] 361100007321 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100007322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 361100007323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100007324 Coenzyme A binding pocket [chemical binding]; other site 361100007325 Protein of unknown function (DUF2691); Region: DUF2691; pfam10903 361100007326 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 361100007327 Ferritin-like domain; Region: Ferritin; pfam00210 361100007328 dinuclear metal binding motif [ion binding]; other site 361100007329 Protein of unknown function (DUF3533); Region: DUF3533; pfam12051 361100007330 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 361100007331 Helix-turn-helix domains; Region: HTH; cl00088 361100007332 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 361100007333 phosphoenolpyruvate synthase; Validated; Region: PRK06241 361100007334 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 361100007335 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 361100007336 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 361100007337 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100007338 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 361100007339 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 361100007340 Coat F domain; Region: Coat_F; cl15836 361100007341 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 361100007342 LysE type translocator; Region: LysE; cl00565 361100007343 Spore germination protein; Region: Spore_permease; cl15802 361100007344 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100007345 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 361100007346 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 361100007347 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100007348 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 361100007349 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 361100007350 NAD binding site [chemical binding]; other site 361100007351 catalytic Zn binding site [ion binding]; other site 361100007352 structural Zn binding site [ion binding]; other site 361100007353 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 361100007354 dimanganese center [ion binding]; other site 361100007355 aspartate ammonia-lyase; Provisional; Region: PRK14515 361100007356 Aspartase; Region: Aspartase; cd01357 361100007357 active sites [active] 361100007358 tetramer interface [polypeptide binding]; other site 361100007359 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 361100007360 active site 361100007361 homodimer interface [polypeptide binding]; other site 361100007362 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 361100007363 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100007364 non-specific DNA binding site [nucleotide binding]; other site 361100007365 salt bridge; other site 361100007366 sequence-specific DNA binding site [nucleotide binding]; other site 361100007367 Integrase core domain; Region: rve_3; cl15866 361100007368 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 361100007369 GIY-YIG motif/motif A; other site 361100007370 active site 361100007371 catalytic site [active] 361100007372 putative DNA binding site [nucleotide binding]; other site 361100007373 metal binding site [ion binding]; metal-binding site 361100007374 amino acid transporter; Region: 2A0306; TIGR00909 361100007375 Spore germination protein; Region: Spore_permease; cl15802 361100007376 Spore germination protein; Region: Spore_permease; cl15802 361100007377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007378 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 361100007379 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100007380 Spore germination protein; Region: Spore_permease; cl15802 361100007381 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100007382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100007383 active site 361100007384 phosphorylation site [posttranslational modification] 361100007385 intermolecular recognition site; other site 361100007386 dimerization interface [polypeptide binding]; other site 361100007387 YcbB domain; Region: YcbB; pfam08664 361100007388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100007389 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100007390 ATP binding site [chemical binding]; other site 361100007391 Mg2+ binding site [ion binding]; other site 361100007392 G-X-G motif; other site 361100007393 Glutaminase; Region: Glutaminase; cl00907 361100007394 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100007395 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100007396 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 361100007397 transmembrane helices; other site 361100007398 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 361100007399 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100007400 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 361100007401 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 361100007402 [2Fe-2S] cluster binding site [ion binding]; other site 361100007403 putative efflux protein, MATE family; Region: matE; TIGR00797 361100007404 MatE; Region: MatE; cl10513 361100007405 MatE; Region: MatE; cl10513 361100007406 amino acid transporter; Region: 2A0306; TIGR00909 361100007407 Spore germination protein; Region: Spore_permease; cl15802 361100007408 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 361100007409 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 361100007410 putative active site [active] 361100007411 putative metal binding site [ion binding]; other site 361100007412 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 361100007413 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 361100007414 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 361100007415 tetramer interface [polypeptide binding]; other site 361100007416 heme binding pocket [chemical binding]; other site 361100007417 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 361100007418 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 361100007419 plasmid segregation protein ParM; Provisional; Region: PRK13917 361100007420 Heat induced stress protein YflT; Region: YflT; pfam11181 361100007421 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100007422 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 361100007423 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 361100007424 TspO/MBR family; Region: TspO_MBR; cl01379 361100007425 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 361100007426 DNA photolyase; Region: DNA_photolyase; pfam00875 361100007427 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 361100007428 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 361100007429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007430 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 361100007431 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 361100007432 active site clefts [active] 361100007433 zinc binding site [ion binding]; other site 361100007434 dimer interface [polypeptide binding]; other site 361100007435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 361100007436 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 361100007437 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 361100007438 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 361100007439 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 361100007440 Spore germination protein; Region: Spore_permease; cl15802 361100007441 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100007442 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100007443 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100007444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100007445 Coenzyme A binding pocket [chemical binding]; other site 361100007446 UbiA prenyltransferase family; Region: UbiA; cl00337 361100007447 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 361100007448 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 361100007449 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100007450 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100007451 Walker A/P-loop; other site 361100007452 ATP binding site [chemical binding]; other site 361100007453 Q-loop/lid; other site 361100007454 ABC transporter signature motif; other site 361100007455 Walker B; other site 361100007456 D-loop; other site 361100007457 H-loop/switch region; other site 361100007458 FtsX-like permease family; Region: FtsX; cl15850 361100007459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 361100007460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100007461 ATP binding site [chemical binding]; other site 361100007462 Mg2+ binding site [ion binding]; other site 361100007463 G-X-G motif; other site 361100007464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100007465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100007466 active site 361100007467 dimerization interface [polypeptide binding]; other site 361100007468 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100007469 DNA binding residues [nucleotide binding] 361100007470 dimerization interface [polypeptide binding]; other site 361100007471 DJ-1 family protein; Region: not_thiJ; TIGR01383 361100007472 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 361100007473 conserved cys residue [active] 361100007474 Phosphotransferase enzyme family; Region: APH; pfam01636 361100007475 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100007476 active site 361100007477 ATP binding site [chemical binding]; other site 361100007478 substrate binding site [chemical binding]; other site 361100007479 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007480 Predicted membrane protein [Function unknown]; Region: COG1470 361100007481 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 361100007482 NPCBM/NEW2 domain; Region: NPCBM; cl07060 361100007483 short chain dehydrogenase; Validated; Region: PRK08324 361100007484 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 361100007485 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 361100007486 putative NAD(P) binding site [chemical binding]; other site 361100007487 active site 361100007488 L-fucose isomerase; Provisional; Region: fucI; PRK10991 361100007489 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 361100007490 hexamer (dimer of trimers) interface [polypeptide binding]; other site 361100007491 trimer interface [polypeptide binding]; other site 361100007492 substrate binding site [chemical binding]; other site 361100007493 Mn binding site [ion binding]; other site 361100007494 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 361100007495 N- and C-terminal domain interface [polypeptide binding]; other site 361100007496 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 361100007497 active site 361100007498 catalytic site [active] 361100007499 metal binding site [ion binding]; metal-binding site 361100007500 ATP binding site [chemical binding]; other site 361100007501 carbohydrate binding site [chemical binding]; other site 361100007502 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 361100007503 active site 361100007504 intersubunit interface [polypeptide binding]; other site 361100007505 Zn2+ binding site [ion binding]; other site 361100007506 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 361100007507 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 361100007508 putative ligand binding site [chemical binding]; other site 361100007509 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 361100007510 TM-ABC transporter signature motif; other site 361100007511 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 361100007512 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 361100007513 Walker A/P-loop; other site 361100007514 ATP binding site [chemical binding]; other site 361100007515 Q-loop/lid; other site 361100007516 ABC transporter signature motif; other site 361100007517 Walker B; other site 361100007518 D-loop; other site 361100007519 H-loop/switch region; other site 361100007520 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 361100007521 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 361100007522 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100007523 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100007524 DNA binding site [nucleotide binding] 361100007525 domain linker motif; other site 361100007526 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 361100007527 dimerization interface [polypeptide binding]; other site 361100007528 ligand binding site [chemical binding]; other site 361100007529 Protein of unknown function DUF262; Region: DUF262; cl14890 361100007530 Protein of unknown function DUF262; Region: DUF262; cl14890 361100007531 Low molecular weight phosphatase family; Region: LMWPc; cd00115 361100007532 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 361100007533 active site 361100007534 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 361100007535 Membrane transport protein; Region: Mem_trans; cl09117 361100007536 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100007537 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 361100007538 putative metal binding site [ion binding]; other site 361100007539 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100007540 dimerization interface [polypeptide binding]; other site 361100007541 putative DNA binding site [nucleotide binding]; other site 361100007542 putative Zn2+ binding site [ion binding]; other site 361100007543 DinB superfamily; Region: DinB_2; pfam12867 361100007544 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100007545 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 361100007546 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100007547 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 361100007548 FtsX-like permease family; Region: FtsX; cl15850 361100007549 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100007550 FtsX-like permease family; Region: FtsX; cl15850 361100007551 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100007552 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100007553 Walker A/P-loop; other site 361100007554 ATP binding site [chemical binding]; other site 361100007555 Q-loop/lid; other site 361100007556 ABC transporter signature motif; other site 361100007557 Walker B; other site 361100007558 D-loop; other site 361100007559 H-loop/switch region; other site 361100007560 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 361100007561 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 361100007562 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 361100007563 active site 361100007564 NTP binding site [chemical binding]; other site 361100007565 metal binding triad [ion binding]; metal-binding site 361100007566 antibiotic binding site [chemical binding]; other site 361100007567 HEPN domain; Region: HEPN; cl00824 361100007568 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 361100007569 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 361100007570 putative NAD(P) binding site [chemical binding]; other site 361100007571 active site 361100007572 putative substrate binding site [chemical binding]; other site 361100007573 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100007574 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100007575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100007576 Helix-turn-helix domains; Region: HTH; cl00088 361100007577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007578 putative substrate translocation pore; other site 361100007579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100007580 Helix-turn-helix domains; Region: HTH; cl00088 361100007581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007582 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 361100007583 NAD(P) binding site [chemical binding]; other site 361100007584 active site 361100007585 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100007586 putative DNA binding site [nucleotide binding]; other site 361100007587 putative Zn2+ binding site [ion binding]; other site 361100007588 Helix-turn-helix domains; Region: HTH; cl00088 361100007589 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 361100007590 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 361100007591 metal binding site [ion binding]; metal-binding site 361100007592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100007593 Family description; Region: UvrD_C_2; cl15862 361100007594 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 361100007595 putative active site [active] 361100007596 catalytic site [active] 361100007597 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100007598 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100007599 active site 361100007600 metal binding site [ion binding]; metal-binding site 361100007601 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 361100007602 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 361100007603 DoxX; Region: DoxX; cl00976 361100007604 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100007605 Helix-turn-helix domains; Region: HTH; cl00088 361100007606 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 361100007607 Cytochrome P450; Region: p450; pfam00067 361100007608 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 361100007609 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100007610 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 361100007611 FAD binding pocket [chemical binding]; other site 361100007612 FAD binding motif [chemical binding]; other site 361100007613 catalytic residues [active] 361100007614 NAD binding pocket [chemical binding]; other site 361100007615 phosphate binding motif [ion binding]; other site 361100007616 beta-alpha-beta structure motif; other site 361100007617 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 361100007618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007619 putative substrate translocation pore; other site 361100007620 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007621 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 361100007622 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100007623 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100007624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007625 putative substrate translocation pore; other site 361100007626 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 361100007627 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 361100007628 D-cysteine desulfhydrase; Validated; Region: PRK03910 361100007629 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 361100007630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100007631 catalytic residue [active] 361100007632 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 361100007633 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100007634 active site 361100007635 metal binding site [ion binding]; metal-binding site 361100007636 Domain of unknown function (DUF4073); Region: DUF4073; pfam13285 361100007637 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 361100007638 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 361100007639 CAAX protease self-immunity; Region: Abi; cl00558 361100007640 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 361100007641 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100007642 DNA binding residues [nucleotide binding] 361100007643 Leucine carboxyl methyltransferase; Region: LCM; cl01306 361100007644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100007645 AAA domain; Region: AAA_33; pfam13671 361100007646 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 361100007647 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 361100007648 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100007649 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100007650 Walker A/P-loop; other site 361100007651 ATP binding site [chemical binding]; other site 361100007652 Q-loop/lid; other site 361100007653 ABC transporter signature motif; other site 361100007654 Walker B; other site 361100007655 D-loop; other site 361100007656 H-loop/switch region; other site 361100007657 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100007658 FtsX-like permease family; Region: FtsX; cl15850 361100007659 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100007660 dimerization interface [polypeptide binding]; other site 361100007661 putative DNA binding site [nucleotide binding]; other site 361100007662 Predicted transcriptional regulator [Transcription]; Region: COG2345 361100007663 putative Zn2+ binding site [ion binding]; other site 361100007664 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100007665 DinB superfamily; Region: DinB_2; pfam12867 361100007666 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 361100007667 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100007668 dimerization interface [polypeptide binding]; other site 361100007669 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100007670 dimer interface [polypeptide binding]; other site 361100007671 phosphorylation site [posttranslational modification] 361100007672 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100007673 ATP binding site [chemical binding]; other site 361100007674 Mg2+ binding site [ion binding]; other site 361100007675 G-X-G motif; other site 361100007676 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100007677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100007678 active site 361100007679 phosphorylation site [posttranslational modification] 361100007680 intermolecular recognition site; other site 361100007681 dimerization interface [polypeptide binding]; other site 361100007682 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100007683 DNA binding site [nucleotide binding] 361100007684 Predicted membrane protein [Function unknown]; Region: COG2364 361100007685 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100007686 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100007687 Helix-turn-helix domains; Region: HTH; cl00088 361100007688 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007689 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 361100007690 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100007691 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100007692 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100007693 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007694 D-galactonate transporter; Region: 2A0114; TIGR00893 361100007695 putative substrate translocation pore; other site 361100007696 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 361100007697 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 361100007698 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 361100007699 4Fe-4S binding domain; Region: Fer4; cl02805 361100007700 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 361100007701 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 361100007702 Cysteine-rich domain; Region: CCG; pfam02754 361100007703 Cysteine-rich domain; Region: CCG; pfam02754 361100007704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100007705 Helix-turn-helix domains; Region: HTH; cl00088 361100007706 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100007707 dimerization interface [polypeptide binding]; other site 361100007708 2TM domain; Region: 2TM; pfam13239 361100007709 F0F1 ATP synthase subunit alpha; Validated; Region: PRK06763 361100007710 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 361100007711 putative dimer interface [polypeptide binding]; other site 361100007712 catalytic triad [active] 361100007713 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 361100007714 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 361100007715 glyoxylate reductase; Reviewed; Region: PRK13243 361100007716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007717 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 361100007718 L-serine binding site [chemical binding]; other site 361100007719 ACT domain interface; other site 361100007720 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 361100007721 homodimer interface [polypeptide binding]; other site 361100007722 substrate-cofactor binding pocket; other site 361100007723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100007724 catalytic residue [active] 361100007725 Cupin domain; Region: Cupin_2; cl09118 361100007726 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 361100007727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100007728 Penicillin amidase; Region: Penicil_amidase; pfam01804 361100007729 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 361100007730 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 361100007731 active site 361100007732 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 361100007733 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 361100007734 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 361100007735 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100007736 amidase catalytic site [active] 361100007737 Zn binding residues [ion binding]; other site 361100007738 substrate binding site [chemical binding]; other site 361100007739 Bacterial SH3 domain; Region: SH3_3; cl02551 361100007740 S-layer homology domain; Region: SLH; pfam00395 361100007741 S-layer homology domain; Region: SLH; pfam00395 361100007742 S-layer homology domain; Region: SLH; pfam00395 361100007743 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 361100007744 A new structural DNA glycosylase; Region: AlkD_like; cd06561 361100007745 active site 361100007746 Protein of unknown function (DUF3895); Region: DUF3895; pfam13034 361100007747 S-layer homology domain; Region: SLH; pfam00395 361100007748 S-layer homology domain; Region: SLH; pfam00395 361100007749 S-layer homology domain; Region: SLH; pfam00395 361100007750 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 361100007751 putative metal binding site [ion binding]; other site 361100007752 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100007753 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 361100007754 NETI protein; Region: NETI; pfam14044 361100007755 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007756 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100007757 putative substrate translocation pore; other site 361100007758 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100007759 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100007760 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100007761 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100007762 Helix-turn-helix domains; Region: HTH; cl00088 361100007763 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100007764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007765 putative substrate translocation pore; other site 361100007766 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100007767 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100007768 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100007769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100007770 Walker A/P-loop; other site 361100007771 ATP binding site [chemical binding]; other site 361100007772 Q-loop/lid; other site 361100007773 ABC transporter signature motif; other site 361100007774 Walker B; other site 361100007775 D-loop; other site 361100007776 H-loop/switch region; other site 361100007777 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 361100007778 Helix-turn-helix domains; Region: HTH; cl00088 361100007779 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100007780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100007781 Helix-turn-helix domains; Region: HTH; cl00088 361100007782 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 361100007783 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 361100007784 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100007785 Uncharacterized conserved protein [Function unknown]; Region: COG4715 361100007786 SWIM zinc finger; Region: SWIM; cl15408 361100007787 SWIM zinc finger; Region: SWIM; cl15408 361100007788 YwiC-like protein; Region: YwiC; pfam14256 361100007789 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100007790 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 361100007791 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 361100007792 Walker A/P-loop; other site 361100007793 ATP binding site [chemical binding]; other site 361100007794 Q-loop/lid; other site 361100007795 ABC transporter signature motif; other site 361100007796 Walker B; other site 361100007797 D-loop; other site 361100007798 H-loop/switch region; other site 361100007799 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The...; Region: ABC_cobalt_CbiO_domain2; cd03226 361100007800 Walker A/P-loop; other site 361100007801 ATP binding site [chemical binding]; other site 361100007802 Q-loop/lid; other site 361100007803 ABC transporter signature motif; other site 361100007804 Walker B; other site 361100007805 D-loop; other site 361100007806 H-loop/switch region; other site 361100007807 Cobalt transport protein; Region: CbiQ; cl00463 361100007808 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 361100007809 Calreticulin family; Region: Calreticulin; pfam00262 361100007810 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 361100007811 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 361100007812 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 361100007813 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 361100007814 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 361100007815 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 361100007816 DNA binding residues [nucleotide binding] 361100007817 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100007818 dimer interface [polypeptide binding]; other site 361100007819 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 361100007820 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100007821 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100007822 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100007823 non-specific DNA binding site [nucleotide binding]; other site 361100007824 salt bridge; other site 361100007825 sequence-specific DNA binding site [nucleotide binding]; other site 361100007826 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100007827 nudix motif; other site 361100007828 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 361100007829 putative deacylase active site [active] 361100007830 histidyl-tRNA synthetase; Provisional; Region: PRK12420 361100007831 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 361100007832 dimer interface [polypeptide binding]; other site 361100007833 motif 1; other site 361100007834 active site 361100007835 motif 2; other site 361100007836 motif 3; other site 361100007837 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 361100007838 anticodon binding site; other site 361100007839 Helix-turn-helix domains; Region: HTH; cl00088 361100007840 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 361100007841 dimer interface [polypeptide binding]; other site 361100007842 FMN binding site [chemical binding]; other site 361100007843 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 361100007844 active site 361100007845 domain interfaces; other site 361100007846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007847 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 361100007848 NAD(P) binding site [chemical binding]; other site 361100007849 active site 361100007850 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 361100007851 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100007852 Walker A/P-loop; other site 361100007853 ATP binding site [chemical binding]; other site 361100007854 Q-loop/lid; other site 361100007855 ABC transporter signature motif; other site 361100007856 Walker B; other site 361100007857 D-loop; other site 361100007858 H-loop/switch region; other site 361100007859 Protein of unknown function (DUF3796); Region: DUF3796; pfam12676 361100007860 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100007861 non-specific DNA binding site [nucleotide binding]; other site 361100007862 salt bridge; other site 361100007863 sequence-specific DNA binding site [nucleotide binding]; other site 361100007864 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 361100007865 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100007866 motif II; other site 361100007867 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 361100007868 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 361100007869 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 361100007870 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100007871 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 361100007872 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 361100007873 nudix motif; other site 361100007874 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 361100007875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100007876 putative metal binding site [ion binding]; other site 361100007877 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 361100007878 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100007879 maltose O-acetyltransferase; Provisional; Region: PRK10092 361100007880 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 361100007881 active site 361100007882 substrate binding site [chemical binding]; other site 361100007883 trimer interface [polypeptide binding]; other site 361100007884 CoA binding site [chemical binding]; other site 361100007885 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 361100007886 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 361100007887 active site 361100007888 HIGH motif; other site 361100007889 dimer interface [polypeptide binding]; other site 361100007890 KMSKS motif; other site 361100007891 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 361100007892 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 361100007893 Domain of unknown function DUF20; Region: UPF0118; pfam01594 361100007894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100007895 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 361100007896 Coenzyme A binding pocket [chemical binding]; other site 361100007897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100007898 S-adenosylmethionine binding site [chemical binding]; other site 361100007899 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 361100007900 CGNR zinc finger; Region: zf-CGNR; pfam11706 361100007901 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100007903 putative substrate translocation pore; other site 361100007904 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 361100007905 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100007906 hypothetical protein; Provisional; Region: PRK04164 361100007907 ATP synthase I chain; Region: ATP_synt_I; cl09170 361100007908 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 361100007909 Domain of unknown function DUF21; Region: DUF21; pfam01595 361100007910 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 361100007911 Transporter associated domain; Region: CorC_HlyC; cl08393 361100007912 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg4; cd04779 361100007913 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100007914 DNA binding residues [nucleotide binding] 361100007915 putative dimer interface [polypeptide binding]; other site 361100007916 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100007917 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 361100007918 substrate binding site; other site 361100007919 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 361100007920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007921 NAD(P) binding site [chemical binding]; other site 361100007922 active site 361100007923 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 361100007924 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100007925 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100007926 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 361100007927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007928 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 361100007929 NAD(P) binding site [chemical binding]; other site 361100007930 active site 361100007931 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100007932 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 361100007933 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 361100007934 EamA-like transporter family; Region: EamA; cl01037 361100007935 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100007936 EamA-like transporter family; Region: EamA; cl01037 361100007937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007938 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 361100007939 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 361100007940 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 361100007941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 361100007942 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 361100007943 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 361100007944 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 361100007945 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 361100007946 N- and C-terminal domain interface [polypeptide binding]; other site 361100007947 putative active site [active] 361100007948 catalytic site [active] 361100007949 metal binding site [ion binding]; metal-binding site 361100007950 carbohydrate binding site [chemical binding]; other site 361100007951 ATP binding site [chemical binding]; other site 361100007952 GntP family permease; Region: GntP_permease; pfam02447 361100007953 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 361100007954 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 361100007955 active site 361100007956 intersubunit interactions; other site 361100007957 catalytic residue [active] 361100007958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100007959 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd_rel; TIGR00872 361100007960 transketolase; Reviewed; Region: PRK05899 361100007961 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 361100007962 TPP-binding site [chemical binding]; other site 361100007963 dimer interface [polypeptide binding]; other site 361100007964 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 361100007965 PYR/PP interface [polypeptide binding]; other site 361100007966 dimer interface [polypeptide binding]; other site 361100007967 TPP binding site [chemical binding]; other site 361100007968 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100007969 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 361100007970 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 361100007971 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 361100007972 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 361100007973 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 361100007974 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 361100007975 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 361100007976 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 361100007977 putative NAD(P) binding site [chemical binding]; other site 361100007978 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 361100007979 classical (c) SDRs; Region: SDR_c; cd05233 361100007980 NAD(P) binding site [chemical binding]; other site 361100007981 active site 361100007982 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 361100007983 dimer interface [polypeptide binding]; other site 361100007984 FMN binding site [chemical binding]; other site 361100007985 BNR repeat-like domain; Region: BNR_2; pfam13088 361100007986 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100007987 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 361100007988 active site 361100007989 catalytic tetrad [active] 361100007990 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100007991 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100007992 putative substrate translocation pore; other site 361100007993 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 361100007994 active site 1 [active] 361100007995 dimer interface [polypeptide binding]; other site 361100007996 hexamer interface [polypeptide binding]; other site 361100007997 active site 2 [active] 361100007998 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 361100007999 Domain of unknown function (DUF336); Region: DUF336; cl01249 361100008000 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100008001 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100008002 active site 361100008003 metal binding site [ion binding]; metal-binding site 361100008004 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 361100008005 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 361100008006 IDEAL domain; Region: IDEAL; cl07452 361100008007 Helix-turn-helix domains; Region: HTH; cl00088 361100008008 Rrf2 family protein; Region: rrf2_super; TIGR00738 361100008009 chaperonin_like superfamily. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 361100008010 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 361100008011 ArsC family; Region: ArsC; pfam03960 361100008012 putative catalytic residues [active] 361100008013 thiol/disulfide switch; other site 361100008014 Helix-turn-helix domains; Region: HTH; cl00088 361100008015 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 361100008016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100008017 DNA-binding site [nucleotide binding]; DNA binding site 361100008018 UTRA domain; Region: UTRA; cl01230 361100008019 putative oxidoreductase; Provisional; Region: PRK10206 361100008020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008021 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 361100008022 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 361100008023 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100008024 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100008025 S-adenosylmethionine binding site [chemical binding]; other site 361100008026 Helix-turn-helix domains; Region: HTH; cl00088 361100008027 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100008028 dimerization interface [polypeptide binding]; other site 361100008029 putative DNA binding site [nucleotide binding]; other site 361100008030 putative Zn2+ binding site [ion binding]; other site 361100008031 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 361100008032 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100008033 active site 361100008034 catalytic tetrad [active] 361100008035 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 361100008036 putative hydrophobic ligand binding site [chemical binding]; other site 361100008037 protein interface [polypeptide binding]; other site 361100008038 gate; other site 361100008039 Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of...; Region: Isoamyl_acetate_hydrolase_like; cd01838 361100008040 catalytic triad [active] 361100008041 oxyanion hole [active] 361100008042 active site 361100008043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100008044 Phosphotransferase enzyme family; Region: APH; pfam01636 361100008045 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100008046 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 361100008047 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 361100008048 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 361100008049 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008051 short chain dehydrogenase; Provisional; Region: PRK12828 361100008052 NAD(P) binding site [chemical binding]; other site 361100008053 active site 361100008054 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100008055 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008056 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100008057 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008058 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 361100008059 AMP-binding enzyme; Region: AMP-binding; cl15778 361100008060 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100008061 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100008062 Helix-turn-helix domains; Region: HTH; cl00088 361100008063 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100008064 dimerization interface [polypeptide binding]; other site 361100008065 putative DNA binding site [nucleotide binding]; other site 361100008066 putative Zn2+ binding site [ion binding]; other site 361100008067 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 361100008068 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 361100008069 active site 361100008070 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 361100008071 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 361100008072 NodB motif; other site 361100008073 putative active site [active] 361100008074 putative catalytic site [active] 361100008075 putative Zn binding site [ion binding]; other site 361100008076 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 361100008077 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 361100008078 DXD motif; other site 361100008079 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 361100008080 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 361100008081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100008082 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100008083 active site 361100008084 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 361100008085 CAAX protease self-immunity; Region: Abi; cl00558 361100008086 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100008087 Helix-turn-helix domains; Region: HTH; cl00088 361100008088 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100008089 Predicted transcriptional regulator [Transcription]; Region: COG2378 361100008090 Helix-turn-helix domains; Region: HTH; cl00088 361100008091 WYL domain; Region: WYL; cl14852 361100008092 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100008093 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 361100008094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008095 Walker A/P-loop; other site 361100008096 ATP binding site [chemical binding]; other site 361100008097 Q-loop/lid; other site 361100008098 ABC transporter signature motif; other site 361100008099 Walker B; other site 361100008100 D-loop; other site 361100008101 H-loop/switch region; other site 361100008102 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 361100008103 Helix-turn-helix domains; Region: HTH; cl00088 361100008104 hydroxylamine reductase; Provisional; Region: PRK12310 361100008105 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 361100008106 ACS interaction site; other site 361100008107 CODH interaction site; other site 361100008108 metal cluster binding site [ion binding]; other site 361100008109 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 361100008110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100008111 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100008112 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 361100008113 hypothetical protein; Provisional; Region: PRK06771 361100008114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100008115 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 361100008116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008117 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 361100008118 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100008119 active site 361100008120 metal binding site [ion binding]; metal-binding site 361100008121 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 361100008122 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 361100008123 ligand binding site [chemical binding]; other site 361100008124 flexible hinge region; other site 361100008125 Helix-turn-helix domains; Region: HTH; cl00088 361100008126 Protein of unknown function, DUF606; Region: DUF606; cl01273 361100008127 Protein of unknown function, DUF606; Region: DUF606; cl01273 361100008128 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100008129 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 361100008130 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 361100008131 putative NAD(P) binding site [chemical binding]; other site 361100008132 dimer interface [polypeptide binding]; other site 361100008133 putative transport protein YifK; Provisional; Region: PRK10746 361100008134 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 361100008135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100008136 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 361100008137 putative substrate translocation pore; other site 361100008138 Haemolysin XhlA; Region: XhlA; pfam10779 361100008139 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 361100008140 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 361100008141 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 361100008142 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 361100008143 transmembrane helices; other site 361100008144 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 361100008145 putative ligand binding residues [chemical binding]; other site 361100008146 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 361100008147 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 361100008148 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100008149 ABC-ATPase subunit interface; other site 361100008150 dimer interface [polypeptide binding]; other site 361100008151 putative PBP binding regions; other site 361100008152 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100008153 ABC-ATPase subunit interface; other site 361100008154 dimer interface [polypeptide binding]; other site 361100008155 putative PBP binding regions; other site 361100008156 Protein of unknown function (DUF817); Region: DUF817; cl01520 361100008157 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 361100008158 DinB superfamily; Region: DinB_2; pfam12867 361100008159 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100008160 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100008161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008162 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 361100008163 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 361100008164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100008165 Helix-turn-helix domains; Region: HTH; cl00088 361100008166 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100008167 dimerization interface [polypeptide binding]; other site 361100008168 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100008169 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 361100008170 NADP binding site [chemical binding]; other site 361100008171 dimer interface [polypeptide binding]; other site 361100008172 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100008173 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100008174 catalytic core [active] 361100008175 Predicted acetyltransferase [General function prediction only]; Region: COG3153 361100008176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100008177 Coenzyme A binding pocket [chemical binding]; other site 361100008178 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 361100008179 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 361100008180 Walker A/P-loop; other site 361100008181 ATP binding site [chemical binding]; other site 361100008182 Q-loop/lid; other site 361100008183 ABC transporter signature motif; other site 361100008184 Walker B; other site 361100008185 D-loop; other site 361100008186 H-loop/switch region; other site 361100008187 N-acetyltransferase; Region: Acetyltransf_2; cl00949 361100008188 oligoendopeptidase F; Region: pepF; TIGR00181 361100008189 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 361100008190 active site 361100008191 Zn binding site [ion binding]; other site 361100008192 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 361100008193 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100008194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100008195 putative substrate translocation pore; other site 361100008196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100008197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100008198 Helix-turn-helix domains; Region: HTH; cl00088 361100008199 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 361100008200 putative dimerization interface [polypeptide binding]; other site 361100008201 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 361100008202 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 361100008203 putative active site [active] 361100008204 Probable transposase; Region: OrfB_IS605; pfam01385 361100008205 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100008206 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 361100008207 Transposase IS200 like; Region: Y1_Tnp; cl00848 361100008208 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100008209 dimerization interface [polypeptide binding]; other site 361100008210 putative DNA binding site [nucleotide binding]; other site 361100008211 putative Zn2+ binding site [ion binding]; other site 361100008212 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 361100008213 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 361100008214 putative NAD(P) binding site [chemical binding]; other site 361100008215 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 361100008216 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 361100008217 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100008218 binding surface 361100008219 TPR motif; other site 361100008220 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100008221 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100008222 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100008223 TPR motif; other site 361100008224 binding surface 361100008225 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 361100008226 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 361100008227 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 361100008228 Membrane transport protein; Region: Mem_trans; cl09117 361100008229 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 361100008230 FAD binding domain; Region: FAD_binding_4; pfam01565 361100008231 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 361100008232 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100008233 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008234 potential frameshift: common BLAST hit: gi|67077952|ref|YP_245572.1| transposase 361100008235 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100008236 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100008237 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 361100008238 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 361100008239 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 361100008240 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 361100008241 MgtC family; Region: MgtC; pfam02308 361100008242 Predicted acetyltransferase [General function prediction only]; Region: COG3981 361100008243 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 361100008244 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 361100008245 putative metal binding site [ion binding]; other site 361100008246 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 361100008247 active site 361100008248 metal binding site [ion binding]; metal-binding site 361100008249 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100008250 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 361100008251 substrate binding pocket [chemical binding]; other site 361100008252 membrane-bound complex binding site; other site 361100008253 hinge residues; other site 361100008254 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 361100008255 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 361100008256 Walker A/P-loop; other site 361100008257 ATP binding site [chemical binding]; other site 361100008258 Q-loop/lid; other site 361100008259 ABC transporter signature motif; other site 361100008260 Walker B; other site 361100008261 D-loop; other site 361100008262 H-loop/switch region; other site 361100008263 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 361100008264 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100008265 dimer interface [polypeptide binding]; other site 361100008266 conserved gate region; other site 361100008267 putative PBP binding loops; other site 361100008268 ABC-ATPase subunit interface; other site 361100008269 VanW like protein; Region: VanW; pfam04294 361100008270 Sensor protein DegS; Region: DegS; pfam05384 361100008271 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 361100008272 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 361100008273 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 361100008274 active site 361100008275 substrate binding site [chemical binding]; other site 361100008276 catalytic site [active] 361100008277 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100008278 DNA-binding site [nucleotide binding]; DNA binding site 361100008279 RNA-binding motif; other site 361100008280 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100008281 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 361100008282 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100008283 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100008284 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 361100008285 catalytic residues [active] 361100008286 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100008287 nudix motif; other site 361100008288 ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_PF0470_like; cd06555 361100008289 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 361100008290 trimer interface [polypeptide binding]; other site 361100008291 active site 361100008292 substrate binding site [chemical binding]; other site 361100008293 CoA binding site [chemical binding]; other site 361100008294 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008295 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008296 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008297 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008298 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008299 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008300 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008301 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008302 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008303 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008304 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008305 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008306 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008307 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008308 short chain dehydrogenase; Provisional; Region: PRK06924 361100008309 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 361100008310 NADP binding site [chemical binding]; other site 361100008311 homodimer interface [polypeptide binding]; other site 361100008312 active site 361100008313 Predicted acetyltransferase [General function prediction only]; Region: COG3393 361100008314 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100008315 argininosuccinate lyase; Provisional; Region: PRK06705 361100008316 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 361100008317 active sites [active] 361100008318 tetramer interface [polypeptide binding]; other site 361100008319 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 361100008320 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100008321 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 361100008322 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 361100008323 active site 361100008324 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 361100008325 Sodium:solute symporter family; Region: SSF; cl00456 361100008326 Protein of unknown function (DUF997); Region: DUF997; cl01614 361100008327 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 361100008328 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 361100008329 NAD(P) binding site [chemical binding]; other site 361100008330 catalytic residues [active] 361100008331 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 361100008332 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 361100008333 NAD(P) binding site [chemical binding]; other site 361100008334 homotetramer interface [polypeptide binding]; other site 361100008335 homodimer interface [polypeptide binding]; other site 361100008336 active site 361100008337 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 361100008338 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 361100008339 Divergent PAP2 family; Region: DUF212; cl00855 361100008340 Predicted permeases [General function prediction only]; Region: RarD; COG2962 361100008341 EamA-like transporter family; Region: EamA; cl01037 361100008342 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 361100008343 Domain of unknown function DUF59; Region: DUF59; cl00941 361100008344 AAA domain; Region: AAA_31; pfam13614 361100008345 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 361100008346 Walker A motif; other site 361100008347 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 361100008348 MoaE interaction surface [polypeptide binding]; other site 361100008349 MoeB interaction surface [polypeptide binding]; other site 361100008350 thiocarboxylated glycine; other site 361100008351 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 361100008352 MoaE homodimer interface [polypeptide binding]; other site 361100008353 MoaD interaction [polypeptide binding]; other site 361100008354 active site residues [active] 361100008355 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 361100008356 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 361100008357 dimer interface [polypeptide binding]; other site 361100008358 putative functional site; other site 361100008359 putative MPT binding site; other site 361100008360 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 361100008361 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 361100008362 ATP binding site [chemical binding]; other site 361100008363 substrate interface [chemical binding]; other site 361100008364 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 361100008365 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 361100008366 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100008367 FeS/SAM binding site; other site 361100008368 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 361100008369 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 361100008370 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 361100008371 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 361100008372 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 361100008373 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 361100008374 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 361100008375 4Fe-4S binding domain; Region: Fer4; cl02805 361100008376 4Fe-4S binding domain; Region: Fer4; cl02805 361100008377 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 361100008378 [4Fe-4S] binding site [ion binding]; other site 361100008379 molybdopterin cofactor binding site; other site 361100008380 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 361100008381 molybdopterin cofactor binding site; other site 361100008382 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100008383 Spore germination protein; Region: Spore_permease; cl15802 361100008384 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100008385 Tubulin like; Region: Tubulin_2; pfam13809 361100008386 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 361100008387 metal ion-dependent adhesion site (MIDAS); other site 361100008388 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100008389 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100008390 active site 361100008391 metal binding site [ion binding]; metal-binding site 361100008392 Methyltransferase domain; Region: Methyltransf_31; pfam13847 361100008393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100008394 S-adenosylmethionine binding site [chemical binding]; other site 361100008395 O-methyltransferase; Region: Methyltransf_2; pfam00891 361100008396 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100008397 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100008398 peptide binding site [polypeptide binding]; other site 361100008399 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100008400 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100008401 peptide binding site [polypeptide binding]; other site 361100008402 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 361100008403 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 361100008404 peptide binding site [polypeptide binding]; other site 361100008405 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100008406 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100008407 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 361100008408 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100008409 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100008410 DNA binding residues [nucleotide binding] 361100008411 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100008412 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100008413 active site 361100008414 metal binding site [ion binding]; metal-binding site 361100008415 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100008416 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100008417 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100008418 Walker A/P-loop; other site 361100008419 ATP binding site [chemical binding]; other site 361100008420 Q-loop/lid; other site 361100008421 ABC transporter signature motif; other site 361100008422 Walker B; other site 361100008423 D-loop; other site 361100008424 H-loop/switch region; other site 361100008425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100008426 Helix-turn-helix domains; Region: HTH; cl00088 361100008427 putative oxidoreductase; Provisional; Region: PRK11579 361100008428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008429 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 361100008430 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 361100008431 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 361100008432 CAP-like domain; other site 361100008433 active site 361100008434 primary dimer interface [polypeptide binding]; other site 361100008435 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100008436 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100008437 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100008438 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 361100008439 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 361100008440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100008441 ATP binding site [chemical binding]; other site 361100008442 Mg2+ binding site [ion binding]; other site 361100008443 G-X-G motif; other site 361100008444 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 361100008445 anchoring element; other site 361100008446 dimer interface [polypeptide binding]; other site 361100008447 ATP binding site [chemical binding]; other site 361100008448 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 361100008449 active site 361100008450 putative metal-binding site [ion binding]; other site 361100008451 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 361100008452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008453 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 361100008454 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 361100008455 protein binding site [polypeptide binding]; other site 361100008456 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100008457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100008458 active site 361100008459 phosphorylation site [posttranslational modification] 361100008460 intermolecular recognition site; other site 361100008461 dimerization interface [polypeptide binding]; other site 361100008462 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100008463 DNA binding site [nucleotide binding] 361100008464 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 361100008465 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100008466 FeS/SAM binding site; other site 361100008467 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 361100008468 Class III ribonucleotide reductase; Region: RNR_III; cd01675 361100008469 effector binding site; other site 361100008470 active site 361100008471 Zn binding site [ion binding]; other site 361100008472 glycine loop; other site 361100008473 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 361100008474 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 361100008475 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 361100008476 active site 361100008477 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 361100008478 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100008479 putative peptidoglycan binding site; other site 361100008480 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100008481 putative peptidoglycan binding site; other site 361100008482 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 361100008483 active site 361100008484 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 361100008485 Small acid-soluble spore protein N family; Region: SspN; cl11659 361100008486 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 361100008487 DNA polymerase III subunit epsilon; Validated; Region: PRK06807 361100008488 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 361100008489 active site 361100008490 catalytic site [active] 361100008491 substrate binding site [chemical binding]; other site 361100008492 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 361100008493 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 361100008494 catalytic residues [active] 361100008495 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100008496 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100008497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008498 Walker A/P-loop; other site 361100008499 ATP binding site [chemical binding]; other site 361100008500 Q-loop/lid; other site 361100008501 ABC transporter signature motif; other site 361100008502 Walker B; other site 361100008503 D-loop; other site 361100008504 H-loop/switch region; other site 361100008505 aconitate hydratase; Validated; Region: PRK09277 361100008506 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 361100008507 substrate binding site [chemical binding]; other site 361100008508 ligand binding site [chemical binding]; other site 361100008509 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 361100008510 substrate binding site [chemical binding]; other site 361100008511 Small acid-soluble spore protein O family; Region: SspO; cl07943 361100008512 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 361100008513 NodB motif; other site 361100008514 active site 361100008515 catalytic site [active] 361100008516 metal binding site [ion binding]; metal-binding site 361100008517 Small acid-soluble spore protein P family; Region: SspP; cl12105 361100008518 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 361100008519 putative dimer interface [polypeptide binding]; other site 361100008520 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100008521 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 361100008522 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100008523 active site 361100008524 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 361100008525 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 361100008526 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 361100008527 nudix motif; other site 361100008528 SAP domain; Region: SAP; cl02640 361100008529 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100008530 non-specific DNA binding site [nucleotide binding]; other site 361100008531 salt bridge; other site 361100008532 sequence-specific DNA binding site [nucleotide binding]; other site 361100008533 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100008534 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 361100008535 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 361100008536 dimer interface [polypeptide binding]; other site 361100008537 active site 361100008538 acyl-CoA synthetase; Validated; Region: PRK07638 361100008539 AMP-binding enzyme; Region: AMP-binding; cl15778 361100008540 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100008541 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 361100008542 AMP-binding enzyme; Region: AMP-binding; cl15778 361100008543 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100008544 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100008545 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100008546 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100008547 Walker A/P-loop; other site 361100008548 ATP binding site [chemical binding]; other site 361100008549 Q-loop/lid; other site 361100008550 ABC transporter signature motif; other site 361100008551 Walker B; other site 361100008552 D-loop; other site 361100008553 H-loop/switch region; other site 361100008554 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 361100008555 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100008556 non-specific DNA binding site [nucleotide binding]; other site 361100008557 salt bridge; other site 361100008558 sequence-specific DNA binding site [nucleotide binding]; other site 361100008559 S-layer homology domain; Region: SLH; pfam00395 361100008560 S-layer homology domain; Region: SLH; pfam00395 361100008561 S-layer homology domain; Region: SLH; pfam00395 361100008562 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 361100008563 active site 361100008564 catalytic motif [active] 361100008565 Zn binding site [ion binding]; other site 361100008566 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 361100008567 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100008568 amidase catalytic site [active] 361100008569 Zn binding residues [ion binding]; other site 361100008570 substrate binding site [chemical binding]; other site 361100008571 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 361100008572 active site 361100008573 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100008574 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100008575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100008576 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 361100008577 dimer interface [polypeptide binding]; other site 361100008578 putative metal binding site [ion binding]; other site 361100008579 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100008580 PAS domain; Region: PAS_9; pfam13426 361100008581 putative active site [active] 361100008582 heme pocket [chemical binding]; other site 361100008583 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 361100008584 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100008585 putative active site [active] 361100008586 heme pocket [chemical binding]; other site 361100008587 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100008588 dimer interface [polypeptide binding]; other site 361100008589 phosphorylation site [posttranslational modification] 361100008590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100008591 ATP binding site [chemical binding]; other site 361100008592 Mg2+ binding site [ion binding]; other site 361100008593 G-X-G motif; other site 361100008594 Predicted esterase [General function prediction only]; Region: COG0400 361100008595 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100008596 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 361100008597 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100008598 Zn binding site [ion binding]; other site 361100008599 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 361100008600 Zn binding site [ion binding]; other site 361100008601 Sodium:solute symporter family; Region: SSF; cl00456 361100008602 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 361100008603 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 361100008604 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 361100008605 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 361100008606 active site 361100008607 FMN binding site [chemical binding]; other site 361100008608 substrate binding site [chemical binding]; other site 361100008609 3Fe-4S cluster binding site [ion binding]; other site 361100008610 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 361100008611 FMN binding site [chemical binding]; other site 361100008612 active site 361100008613 substrate binding site [chemical binding]; other site 361100008614 catalytic residue [active] 361100008615 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 361100008616 Arginase family; Region: Arginase; cl00306 361100008617 imidazolonepropionase; Validated; Region: PRK09356 361100008618 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 361100008619 active site 361100008620 urocanate hydratase; Provisional; Region: PRK05414 361100008621 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 361100008622 active sites [active] 361100008623 tetramer interface [polypeptide binding]; other site 361100008624 HutP; Region: HutP; cl07944 361100008625 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100008626 S-adenosylmethionine binding site [chemical binding]; other site 361100008627 DJ-1 family protein; Region: not_thiJ; TIGR01383 361100008628 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 361100008629 conserved cys residue [active] 361100008630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008631 AAA domain; Region: AAA_28; pfam13521 361100008632 active site 361100008633 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 361100008634 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008635 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008636 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008637 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008638 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008639 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008640 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008641 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008642 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008643 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008644 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008645 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008646 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008647 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008648 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008649 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008650 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100008651 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 361100008652 putative active site [active] 361100008653 putative NTP binding site [chemical binding]; other site 361100008654 putative nucleic acid binding site [nucleotide binding]; other site 361100008655 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100008656 active site 361100008657 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008658 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008659 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100008660 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 361100008661 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 361100008662 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100008663 EamA-like transporter family; Region: EamA; cl01037 361100008664 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 361100008665 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 361100008666 metal binding site [ion binding]; metal-binding site 361100008667 dimer interface [polypeptide binding]; other site 361100008668 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100008669 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100008670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008671 Walker A/P-loop; other site 361100008672 ATP binding site [chemical binding]; other site 361100008673 Q-loop/lid; other site 361100008674 ABC transporter signature motif; other site 361100008675 Walker B; other site 361100008676 D-loop; other site 361100008677 H-loop/switch region; other site 361100008678 Helix-turn-helix domains; Region: HTH; cl00088 361100008679 The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold; Region: PBP2_AlsR; cd08452 361100008680 putative dimerization interface [polypeptide binding]; other site 361100008681 putative substrate binding pocket [chemical binding]; other site 361100008682 LrgA family; Region: LrgA; cl00608 361100008683 LrgB-like family; Region: LrgB; cl00596 361100008684 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 361100008685 nudix motif; other site 361100008686 Domain of unknown function (DUF3903); Region: DUF3903; pfam13043 361100008687 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 361100008688 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100008689 amidase catalytic site [active] 361100008690 Zn binding residues [ion binding]; other site 361100008691 substrate binding site [chemical binding]; other site 361100008692 S-layer homology domain; Region: SLH; pfam00395 361100008693 S-layer homology domain; Region: SLH; pfam00395 361100008694 S-layer homology domain; Region: SLH; pfam00395 361100008695 Restriction endonuclease; Region: Mrr_cat; cl00516 361100008696 Bacterial SH3 domain; Region: SH3_3; cl02551 361100008697 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 361100008698 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100008699 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 361100008700 Walker A/P-loop; other site 361100008701 ATP binding site [chemical binding]; other site 361100008702 Q-loop/lid; other site 361100008703 ABC transporter signature motif; other site 361100008704 Walker B; other site 361100008705 D-loop; other site 361100008706 H-loop/switch region; other site 361100008707 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100008708 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 361100008709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008710 Walker A/P-loop; other site 361100008711 ATP binding site [chemical binding]; other site 361100008712 Q-loop/lid; other site 361100008713 ABC transporter signature motif; other site 361100008714 Walker B; other site 361100008715 D-loop; other site 361100008716 H-loop/switch region; other site 361100008717 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 361100008718 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 361100008719 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 361100008720 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 361100008721 TPP-binding site [chemical binding]; other site 361100008722 dimer interface [polypeptide binding]; other site 361100008723 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 361100008724 PYR/PP interface [polypeptide binding]; other site 361100008725 dimer interface [polypeptide binding]; other site 361100008726 TPP binding site [chemical binding]; other site 361100008727 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100008728 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 361100008729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100008730 dimer interface [polypeptide binding]; other site 361100008731 conserved gate region; other site 361100008732 ABC-ATPase subunit interface; other site 361100008733 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 361100008734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100008735 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 361100008736 Q-loop/lid; other site 361100008737 ABC transporter signature motif; other site 361100008738 Walker B; other site 361100008739 D-loop; other site 361100008740 H-loop/switch region; other site 361100008741 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 361100008742 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100008743 membrane-bound complex binding site; other site 361100008744 hinge residues; other site 361100008745 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 361100008746 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 361100008747 active site 361100008748 metal binding site [ion binding]; metal-binding site 361100008749 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 361100008750 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 361100008751 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100008752 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 361100008753 catalytic residues [active] 361100008754 catalytic nucleophile [active] 361100008755 LexA repressor; Validated; Region: PRK00215 361100008756 Helix-turn-helix domains; Region: HTH; cl00088 361100008757 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 361100008758 Catalytic site [active] 361100008759 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 361100008760 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 361100008761 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 361100008762 Helix-turn-helix domains; Region: HTH; cl00088 361100008763 glutamine synthetase, type I; Region: GlnA; TIGR00653 361100008764 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 361100008765 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 361100008766 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 361100008767 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100008768 DNA binding residues [nucleotide binding] 361100008769 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 361100008770 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100008771 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100008772 catalytic residue [active] 361100008773 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 361100008774 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 361100008775 HflX GTPase family; Region: HflX; cd01878 361100008776 G1 box; other site 361100008777 GTP/Mg2+ binding site [chemical binding]; other site 361100008778 Switch I region; other site 361100008779 G2 box; other site 361100008780 G3 box; other site 361100008781 Switch II region; other site 361100008782 G4 box; other site 361100008783 G5 box; other site 361100008784 Predicted membrane protein [Function unknown]; Region: COG2860 361100008785 UPF0126 domain; Region: UPF0126; pfam03458 361100008786 UPF0126 domain; Region: UPF0126; pfam03458 361100008787 stage V sporulation protein K; Region: spore_V_K; TIGR02881 361100008788 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100008789 Walker A motif; other site 361100008790 ATP binding site [chemical binding]; other site 361100008791 Walker B motif; other site 361100008792 arginine finger; other site 361100008793 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 361100008794 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 361100008795 active site 361100008796 catalytic residues [active] 361100008797 DNA binding site [nucleotide binding] 361100008798 Int/Topo IB signature motif; other site 361100008799 potential frameshift: common BLAST hit: gi|49478336|ref|YP_037777.1| triple helix repeat-containing collagen 361100008800 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 361100008801 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 361100008802 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 361100008803 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 361100008804 Sm1 motif; other site 361100008805 intra - hexamer interaction site; other site 361100008806 inter - hexamer interaction site [polypeptide binding]; other site 361100008807 nucleotide binding pocket [chemical binding]; other site 361100008808 Sm2 motif; other site 361100008809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008810 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 361100008811 Bacterial SH3 domain; Region: SH3_3; cl02551 361100008812 Bacterial SH3 domain; Region: SH3_3; cl02551 361100008813 3D domain; Region: 3D; cl01439 361100008814 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 361100008815 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 361100008816 active site 361100008817 phosphorylation site [posttranslational modification] 361100008818 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 361100008819 active site 361100008820 P-loop; other site 361100008821 phosphorylation site [posttranslational modification] 361100008822 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100008823 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 361100008824 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 361100008825 putative substrate binding site [chemical binding]; other site 361100008826 putative ATP binding site [chemical binding]; other site 361100008827 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 361100008828 Helix-turn-helix domains; Region: HTH; cl00088 361100008829 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 361100008830 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 361100008831 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 361100008832 dimer interface [polypeptide binding]; other site 361100008833 active site 361100008834 metal binding site [ion binding]; metal-binding site 361100008835 Protein of unknown function (DUF420); Region: DUF420; cl00989 361100008836 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 361100008837 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 361100008838 Glyco_18 domain; Region: Glyco_18; smart00636 361100008839 putative active site [active] 361100008840 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 361100008841 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100008842 putative active site [active] 361100008843 putative metal binding site [ion binding]; other site 361100008844 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 361100008845 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 361100008846 IHF dimer interface [polypeptide binding]; other site 361100008847 IHF - DNA interface [nucleotide binding]; other site 361100008848 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 361100008849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100008850 Coenzyme A binding pocket [chemical binding]; other site 361100008851 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 361100008852 metal-binding site [ion binding] 361100008853 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 361100008854 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 361100008855 metal-binding site [ion binding] 361100008856 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 361100008857 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100008858 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 361100008859 metal-binding site [ion binding] 361100008860 Bacillus subtilis copper-sensitive operon repressor (BsCsoR), and related domains; this family was previously known as part of DUF156; Region: BsCsoR-like_DUF156; cd10157 361100008861 putative homodimer interface [polypeptide binding]; other site 361100008862 putative homotetramer interface [polypeptide binding]; other site 361100008863 allosteric switch controlling residues; other site 361100008864 putative metal binding site [ion binding]; other site 361100008865 putative homodimer-homodimer interface [polypeptide binding]; other site 361100008866 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100008867 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100008868 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100008869 Walker A/P-loop; other site 361100008870 ATP binding site [chemical binding]; other site 361100008871 Q-loop/lid; other site 361100008872 ABC transporter signature motif; other site 361100008873 Walker B; other site 361100008874 D-loop; other site 361100008875 H-loop/switch region; other site 361100008876 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 361100008877 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100008878 ABC-ATPase subunit interface; other site 361100008879 dimer interface [polypeptide binding]; other site 361100008880 putative PBP binding regions; other site 361100008881 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100008882 ABC-ATPase subunit interface; other site 361100008883 dimer interface [polypeptide binding]; other site 361100008884 putative PBP binding regions; other site 361100008885 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100008886 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 361100008887 putative ligand binding residues [chemical binding]; other site 361100008888 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 361100008889 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 361100008890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100008891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100008892 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 361100008893 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 361100008894 DNA binding site [nucleotide binding] 361100008895 active site 361100008896 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 361100008897 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 361100008898 endonuclease III; Region: ENDO3c; smart00478 361100008899 minor groove reading motif; other site 361100008900 helix-hairpin-helix signature motif; other site 361100008901 substrate binding pocket [chemical binding]; other site 361100008902 active site 361100008903 peptidase T; Region: peptidase-T; TIGR01882 361100008904 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 361100008905 metal binding site [ion binding]; metal-binding site 361100008906 dimer interface [polypeptide binding]; other site 361100008907 Predicted membrane protein [Function unknown]; Region: COG2364 361100008908 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100008909 hypothetical protein; Provisional; Region: PRK06764 361100008910 PAS domain S-box; Region: sensory_box; TIGR00229 361100008911 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100008912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100008913 metal binding site [ion binding]; metal-binding site 361100008914 active site 361100008915 I-site; other site 361100008916 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100008917 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 361100008918 Uncharacterized protein from bacillus cereus group; Region: YfmQ; pfam10787 361100008919 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 361100008920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100008921 DNA-binding site [nucleotide binding]; DNA binding site 361100008922 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100008923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100008924 homodimer interface [polypeptide binding]; other site 361100008925 catalytic residue [active] 361100008926 Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C; Region: PI-PLCc; cd00137 361100008927 active site 361100008928 catalytic site [active] 361100008929 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100008930 putative peptidoglycan binding site; other site 361100008931 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 361100008932 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100008933 putative peptidoglycan binding site; other site 361100008934 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 361100008935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100008936 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 361100008937 Sulfatase; Region: Sulfatase; cl10460 361100008938 Tetratricopeptide repeat; Region: TPR_16; pfam13432 361100008939 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100008940 binding surface 361100008941 TPR motif; other site 361100008942 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100008943 G1 box; other site 361100008944 GTP/Mg2+ binding site [chemical binding]; other site 361100008945 Switch I region; other site 361100008946 G3 box; other site 361100008947 Switch II region; other site 361100008948 G4 box; other site 361100008949 G5 box; other site 361100008950 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 361100008951 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 361100008952 active site 361100008953 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 361100008954 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100008955 ATP binding site [chemical binding]; other site 361100008956 Mg2+ binding site [ion binding]; other site 361100008957 G-X-G motif; other site 361100008958 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 361100008959 ATP binding site [chemical binding]; other site 361100008960 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 361100008961 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 361100008962 MutS domain I; Region: MutS_I; pfam01624 361100008963 MutS domain II; Region: MutS_II; pfam05188 361100008964 MutS family domain IV; Region: MutS_IV; pfam05190 361100008965 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 361100008966 Walker A/P-loop; other site 361100008967 ATP binding site [chemical binding]; other site 361100008968 Q-loop/lid; other site 361100008969 ABC transporter signature motif; other site 361100008970 Walker B; other site 361100008971 D-loop; other site 361100008972 H-loop/switch region; other site 361100008973 Outer spore coat protein E (CotE); Region: CotE; pfam10628 361100008974 Protein of unknown function (DUF964); Region: DUF964; cl01483 361100008975 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 361100008976 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 361100008977 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100008978 FeS/SAM binding site; other site 361100008979 TRAM domain; Region: TRAM; cl01282 361100008980 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 361100008981 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 361100008982 TPP-binding site [chemical binding]; other site 361100008983 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 361100008984 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 361100008985 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 361100008986 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 361100008987 dimer interface [polypeptide binding]; other site 361100008988 PYR/PP interface [polypeptide binding]; other site 361100008989 TPP binding site [chemical binding]; other site 361100008990 substrate binding site [chemical binding]; other site 361100008991 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100008992 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 361100008993 active site 361100008994 dimer interface [polypeptide binding]; other site 361100008995 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 361100008996 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 361100008997 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100008998 putative active site [active] 361100008999 metal binding site [ion binding]; metal-binding site 361100009000 homodimer binding site [polypeptide binding]; other site 361100009001 phosphodiesterase; Provisional; Region: PRK12704 361100009002 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100009003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009005 Walker A motif; other site 361100009006 ATP binding site [chemical binding]; other site 361100009007 Walker B motif; other site 361100009008 competence damage-inducible protein A; Provisional; Region: PRK00549 361100009009 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 361100009010 putative MPT binding site; other site 361100009011 Competence-damaged protein; Region: CinA; cl00666 361100009012 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 361100009013 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100009014 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 361100009015 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 361100009016 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 361100009017 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 361100009018 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 361100009019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009020 NAD(P) binding site [chemical binding]; other site 361100009021 active site 361100009022 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 361100009023 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 361100009024 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 361100009025 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 361100009026 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 361100009027 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 361100009028 TM-ABC transporter signature motif; other site 361100009029 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 361100009030 TM-ABC transporter signature motif; other site 361100009031 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 361100009032 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 361100009033 Walker A/P-loop; other site 361100009034 ATP binding site [chemical binding]; other site 361100009035 Q-loop/lid; other site 361100009036 ABC transporter signature motif; other site 361100009037 Walker B; other site 361100009038 D-loop; other site 361100009039 H-loop/switch region; other site 361100009040 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 361100009041 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 361100009042 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 361100009043 ligand binding site [chemical binding]; other site 361100009044 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 361100009045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100009046 DNA-binding site [nucleotide binding]; DNA binding site 361100009047 UTRA domain; Region: UTRA; cl01230 361100009048 Tetraspanin family; Region: Tetraspannin; pfam00335 361100009049 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009050 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 361100009051 YlzJ-like protein; Region: YlzJ; pfam14035 361100009052 Clp protease; Region: CLP_protease; pfam00574 361100009053 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 361100009054 active site 361100009055 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 361100009056 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100009057 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 361100009058 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 361100009059 dihydrodipicolinate synthase; Region: dapA; TIGR00674 361100009060 dimer interface [polypeptide binding]; other site 361100009061 active site 361100009062 catalytic residue [active] 361100009063 aspartate kinase I; Reviewed; Region: PRK08210 361100009064 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 361100009065 nucleotide binding site [chemical binding]; other site 361100009066 substrate binding site [chemical binding]; other site 361100009067 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 361100009068 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 361100009069 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 361100009070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009071 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 361100009072 Flavoprotein; Region: Flavoprotein; cl08021 361100009073 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 361100009074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009075 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 361100009076 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 361100009077 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 361100009078 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 361100009079 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 361100009080 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 361100009081 NodB motif; other site 361100009082 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 361100009083 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 361100009084 RNase E interface [polypeptide binding]; other site 361100009085 trimer interface [polypeptide binding]; other site 361100009086 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 361100009087 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 361100009088 RNase E interface [polypeptide binding]; other site 361100009089 trimer interface [polypeptide binding]; other site 361100009090 active site 361100009091 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 361100009092 putative nucleic acid binding region [nucleotide binding]; other site 361100009093 G-X-X-G motif; other site 361100009094 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 361100009095 RNA binding site [nucleotide binding]; other site 361100009096 domain interface; other site 361100009097 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 361100009098 16S/18S rRNA binding site [nucleotide binding]; other site 361100009099 S13e-L30e interaction site [polypeptide binding]; other site 361100009100 25S rRNA binding site [nucleotide binding]; other site 361100009101 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 361100009102 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 361100009103 active site 361100009104 Riboflavin kinase; Region: Flavokinase; cl03312 361100009105 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 361100009106 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 361100009107 RNA binding site [nucleotide binding]; other site 361100009108 active site 361100009109 Ribosome-binding factor A; Region: RBFA; cl00542 361100009110 Protein of unknown function (DUF503); Region: DUF503; cl00669 361100009111 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 361100009112 translation initiation factor IF-2; Region: IF-2; TIGR00487 361100009113 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 361100009114 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 361100009115 G1 box; other site 361100009116 putative GEF interaction site [polypeptide binding]; other site 361100009117 GTP/Mg2+ binding site [chemical binding]; other site 361100009118 Switch I region; other site 361100009119 G2 box; other site 361100009120 G3 box; other site 361100009121 Switch II region; other site 361100009122 G4 box; other site 361100009123 G5 box; other site 361100009124 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 361100009125 Translation-initiation factor 2; Region: IF-2; pfam11987 361100009126 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 361100009127 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 361100009128 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 361100009129 putative RNA binding cleft [nucleotide binding]; other site 361100009130 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 361100009131 NusA N-terminal domain; Region: NusA_N; pfam08529 361100009132 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 361100009133 RNA binding site [nucleotide binding]; other site 361100009134 homodimer interface [polypeptide binding]; other site 361100009135 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 361100009136 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 361100009137 G-X-X-G motif; other site 361100009138 ribosome maturation protein RimP; Reviewed; Region: PRK00092 361100009139 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 361100009140 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 361100009141 Sm1 motif; other site 361100009142 predicted subunit interaction site [polypeptide binding]; other site 361100009143 RNA binding pocket [nucleotide binding]; other site 361100009144 Sm2 motif; other site 361100009145 DNA polymerase III PolC; Validated; Region: polC; PRK00448 361100009146 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 361100009147 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 361100009148 generic binding surface II; other site 361100009149 generic binding surface I; other site 361100009150 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 361100009151 active site 361100009152 catalytic site [active] 361100009153 substrate binding site [chemical binding]; other site 361100009154 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 361100009155 prolyl-tRNA synthetase; Provisional; Region: PRK09194 361100009156 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 361100009157 dimer interface [polypeptide binding]; other site 361100009158 motif 1; other site 361100009159 active site 361100009160 motif 2; other site 361100009161 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 361100009162 putative deacylase active site [active] 361100009163 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 361100009164 active site 361100009165 motif 3; other site 361100009166 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 361100009167 anticodon binding site; other site 361100009168 RIP metalloprotease RseP; Region: TIGR00054 361100009169 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 361100009170 active site 361100009171 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 361100009172 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 361100009173 protein binding site [polypeptide binding]; other site 361100009174 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 361100009175 putative substrate binding region [chemical binding]; other site 361100009176 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 361100009177 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 361100009178 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 361100009179 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 361100009180 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 361100009181 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 361100009182 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 361100009183 putative FPP binding hydrophobic cleft; other site 361100009184 dimer interface [polypeptide binding]; other site 361100009185 putative IPP diphosphate binding site; other site 361100009186 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 361100009187 hinge region; other site 361100009188 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 361100009189 homohexameric interface [polypeptide binding]; other site 361100009190 uridine monophosphate binding site [chemical binding]; other site 361100009191 putative nucleotide binding site [chemical binding]; other site 361100009192 elongation factor Ts; Provisional; Region: tsf; PRK09377 361100009193 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 361100009194 Elongation factor TS; Region: EF_TS; pfam00889 361100009195 Elongation factor TS; Region: EF_TS; pfam00889 361100009196 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 361100009197 rRNA interaction site [nucleotide binding]; other site 361100009198 S8 interaction site; other site 361100009199 putative laminin-1 binding site; other site 361100009200 transcriptional repressor CodY; Validated; Region: PRK04158 361100009201 CodY GAF-like domain; Region: CodY; pfam06018 361100009202 Helix-turn-helix domains; Region: HTH; cl00088 361100009203 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 361100009204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100009205 Walker A motif; other site 361100009206 ATP binding site [chemical binding]; other site 361100009207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009208 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 361100009209 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 361100009210 active site 361100009211 HslU subunit interaction site [polypeptide binding]; other site 361100009212 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 361100009213 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 361100009214 active site 361100009215 Int/Topo IB signature motif; other site 361100009216 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 361100009217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009218 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 361100009219 DNA topoisomerase; Region: Topoisom_bac; pfam01131 361100009220 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 361100009221 domain I; other site 361100009222 DNA binding groove [nucleotide binding] 361100009223 phosphate binding site [ion binding]; other site 361100009224 domain II; other site 361100009225 domain III; other site 361100009226 nucleotide binding site [chemical binding]; other site 361100009227 catalytic site [active] 361100009228 domain IV; other site 361100009229 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 361100009230 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 361100009231 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 361100009232 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 361100009233 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 361100009234 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 361100009235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009236 CoA-ligase; Region: Ligase_CoA; cl02894 361100009237 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 361100009238 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100009239 CoA-ligase; Region: Ligase_CoA; cl02894 361100009240 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 361100009241 RNA/DNA hybrid binding site [nucleotide binding]; other site 361100009242 active site 361100009243 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 361100009244 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 361100009245 GTP/Mg2+ binding site [chemical binding]; other site 361100009246 G4 box; other site 361100009247 G5 box; other site 361100009248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009249 G1 box; other site 361100009250 G1 box; other site 361100009251 GTP/Mg2+ binding site [chemical binding]; other site 361100009252 Switch I region; other site 361100009253 G2 box; other site 361100009254 G2 box; other site 361100009255 G3 box; other site 361100009256 G3 box; other site 361100009257 Switch II region; other site 361100009258 Switch II region; other site 361100009259 G4 box; other site 361100009260 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 361100009261 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100009262 Catalytic site [active] 361100009263 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 361100009264 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 361100009265 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 361100009266 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 361100009267 RimM N-terminal domain; Region: RimM; pfam01782 361100009268 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 361100009269 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 361100009270 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 361100009271 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 361100009272 signal recognition particle protein; Provisional; Region: PRK10867 361100009273 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 361100009274 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 361100009275 P loop; other site 361100009276 GTP binding site [chemical binding]; other site 361100009277 Signal peptide binding domain; Region: SRP_SPB; pfam02978 361100009278 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100009279 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 361100009280 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 361100009281 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 361100009282 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 361100009283 P loop; other site 361100009284 GTP binding site [chemical binding]; other site 361100009285 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 361100009286 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 361100009287 Walker A/P-loop; other site 361100009288 ATP binding site [chemical binding]; other site 361100009289 Q-loop/lid; other site 361100009290 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 361100009291 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 361100009292 ABC transporter signature motif; other site 361100009293 Walker B; other site 361100009294 D-loop; other site 361100009295 H-loop/switch region; other site 361100009296 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 361100009297 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 361100009298 dimerization interface [polypeptide binding]; other site 361100009299 active site 361100009300 metal binding site [ion binding]; metal-binding site 361100009301 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 361100009302 dsRNA binding site [nucleotide binding]; other site 361100009303 Phosphopantetheine attachment site; Region: PP-binding; cl09936 361100009304 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 361100009305 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 361100009306 NAD(P) binding site [chemical binding]; other site 361100009307 homotetramer interface [polypeptide binding]; other site 361100009308 homodimer interface [polypeptide binding]; other site 361100009309 active site 361100009310 Acyl transferase domain; Region: Acyl_transf_1; cl08282 361100009311 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 361100009312 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 361100009313 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 361100009314 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 361100009315 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 361100009316 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 361100009317 generic binding surface II; other site 361100009318 ssDNA binding site; other site 361100009319 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100009320 ATP binding site [chemical binding]; other site 361100009321 putative Mg++ binding site [ion binding]; other site 361100009322 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100009323 nucleotide binding region [chemical binding]; other site 361100009324 ATP-binding site [chemical binding]; other site 361100009325 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 361100009326 DAK2 domain; Region: Dak2; cl03685 361100009327 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 361100009328 Asp23 family; Region: Asp23; cl00574 361100009329 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 361100009330 Thiamine pyrophosphokinase; Region: TPK; cd07995 361100009331 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 361100009332 active site 361100009333 dimerization interface [polypeptide binding]; other site 361100009334 thiamine binding site [chemical binding]; other site 361100009335 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 361100009336 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 361100009337 substrate binding site [chemical binding]; other site 361100009338 hexamer interface [polypeptide binding]; other site 361100009339 metal binding site [ion binding]; metal-binding site 361100009340 GTPase RsgA; Reviewed; Region: PRK00098 361100009341 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 361100009342 RNA binding site [nucleotide binding]; other site 361100009343 homodimer interface [polypeptide binding]; other site 361100009344 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 361100009345 GTPase/Zn-binding domain interface [polypeptide binding]; other site 361100009346 GTP/Mg2+ binding site [chemical binding]; other site 361100009347 G4 box; other site 361100009348 G5 box; other site 361100009349 G1 box; other site 361100009350 Switch I region; other site 361100009351 G2 box; other site 361100009352 G3 box; other site 361100009353 Switch II region; other site 361100009354 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 361100009355 Catalytic domain of Protein Kinases; Region: PKc; cd00180 361100009356 active site 361100009357 ATP binding site [chemical binding]; other site 361100009358 substrate binding site [chemical binding]; other site 361100009359 activation loop (A-loop); other site 361100009360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 361100009361 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 361100009362 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 361100009363 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 361100009364 Protein phosphatase 2C; Region: PP2C; pfam00481 361100009365 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 361100009366 active site 361100009367 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 361100009368 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100009369 FeS/SAM binding site; other site 361100009370 16S rRNA methyltransferase B; Provisional; Region: PRK14902 361100009371 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 361100009372 putative RNA binding site [nucleotide binding]; other site 361100009373 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100009374 S-adenosylmethionine binding site [chemical binding]; other site 361100009375 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 361100009376 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 361100009377 putative active site [active] 361100009378 substrate binding site [chemical binding]; other site 361100009379 putative cosubstrate binding site; other site 361100009380 catalytic site [active] 361100009381 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 361100009382 substrate binding site [chemical binding]; other site 361100009383 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 361100009384 active site 361100009385 catalytic residues [active] 361100009386 metal binding site [ion binding]; metal-binding site 361100009387 primosome assembly protein PriA; Validated; Region: PRK05580 361100009388 primosome assembly protein PriA; Validated; Region: PRK05580 361100009389 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100009390 ATP binding site [chemical binding]; other site 361100009391 putative Mg++ binding site [ion binding]; other site 361100009392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009393 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 361100009394 Flavoprotein; Region: Flavoprotein; cl08021 361100009395 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 361100009396 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 361100009397 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 361100009398 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 361100009399 catalytic site [active] 361100009400 G-X2-G-X-G-K; other site 361100009401 Domain of unknown function (DUF370); Region: DUF370; cl00898 361100009402 hypothetical protein; Provisional; Region: PRK11820 361100009403 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 361100009404 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 361100009405 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 361100009406 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 361100009407 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 361100009408 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 361100009409 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100009410 motif II; other site 361100009411 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 361100009412 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 361100009413 Domain of unknown function (DUF814); Region: DUF814; pfam05670 361100009414 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 361100009415 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 361100009416 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 361100009417 active site 361100009418 DinB superfamily; Region: DinB_2; pfam12867 361100009419 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100009420 YoqO-like protein; Region: YoqO; pfam14037 361100009421 YoqO-like protein; Region: YoqO; pfam14037 361100009422 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 361100009423 Protein of unknown function (DUF2651); Region: DUF2651; pfam10852 361100009424 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 361100009425 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100009426 motif II; other site 361100009427 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 361100009428 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100009429 active site 361100009430 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 361100009431 active site 361100009432 dimer interface [polypeptide binding]; other site 361100009433 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 361100009434 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 361100009435 heterodimer interface [polypeptide binding]; other site 361100009436 active site 361100009437 FMN binding site [chemical binding]; other site 361100009438 homodimer interface [polypeptide binding]; other site 361100009439 substrate binding site [chemical binding]; other site 361100009440 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 361100009441 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 361100009442 FAD binding pocket [chemical binding]; other site 361100009443 FAD binding motif [chemical binding]; other site 361100009444 phosphate binding motif [ion binding]; other site 361100009445 beta-alpha-beta structure motif; other site 361100009446 NAD binding pocket [chemical binding]; other site 361100009447 Iron coordination center [ion binding]; other site 361100009448 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 361100009449 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 361100009450 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100009451 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 361100009452 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 361100009453 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100009454 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 361100009455 IMP binding site; other site 361100009456 dimer interface [polypeptide binding]; other site 361100009457 interdomain contacts; other site 361100009458 partial ornithine binding site; other site 361100009459 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 361100009460 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 361100009461 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 361100009462 catalytic site [active] 361100009463 subunit interface [polypeptide binding]; other site 361100009464 dihydroorotase; Validated; Region: pyrC; PRK09357 361100009465 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 361100009466 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 361100009467 active site 361100009468 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 361100009469 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 361100009470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009471 uracil transporter; Provisional; Region: PRK10720 361100009472 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100009473 active site 361100009474 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 361100009475 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100009476 RNA binding surface [nucleotide binding]; other site 361100009477 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 361100009478 active site 361100009479 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 361100009480 lipoprotein signal peptidase; Provisional; Region: PRK14787 361100009481 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 361100009482 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 361100009483 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 361100009484 active site 361100009485 HIGH motif; other site 361100009486 nucleotide binding site [chemical binding]; other site 361100009487 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 361100009488 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 361100009489 active site 361100009490 KMSKS motif; other site 361100009491 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 361100009492 tRNA binding surface [nucleotide binding]; other site 361100009493 anticodon binding site; other site 361100009494 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 361100009495 DivIVA protein; Region: DivIVA; pfam05103 361100009496 DivIVA domain; Region: DivI1A_domain; TIGR03544 361100009497 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 361100009498 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 361100009499 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100009500 RNA binding surface [nucleotide binding]; other site 361100009501 YGGT family; Region: YGGT; cl00508 361100009502 Protein of unknown function (DUF552); Region: DUF552; cl00775 361100009503 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 361100009504 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 361100009505 catalytic residue [active] 361100009506 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 361100009507 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 361100009508 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 361100009509 sporulation sigma factor SigG; Reviewed; Region: PRK08215 361100009510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100009511 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 361100009512 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100009513 DNA binding residues [nucleotide binding] 361100009514 sporulation sigma factor SigE; Reviewed; Region: PRK08301 361100009515 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100009516 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100009517 DNA binding residues [nucleotide binding] 361100009518 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 361100009519 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 361100009520 cell division protein FtsZ; Validated; Region: PRK09330 361100009521 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 361100009522 nucleotide binding site [chemical binding]; other site 361100009523 SulA interaction site; other site 361100009524 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 361100009525 Cell division protein FtsA; Region: FtsA; cl11496 361100009526 Cell division protein FtsA; Region: FtsA; cl11496 361100009527 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 361100009528 Cell division protein FtsQ; Region: FtsQ; pfam03799 361100009529 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 361100009530 FAD binding domain; Region: FAD_binding_4; pfam01565 361100009531 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 361100009532 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 361100009533 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 361100009534 active site 361100009535 homodimer interface [polypeptide binding]; other site 361100009536 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 361100009537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009538 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 361100009539 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100009540 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100009541 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 361100009542 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 361100009543 Mg++ binding site [ion binding]; other site 361100009544 putative catalytic motif [active] 361100009545 putative substrate binding site [chemical binding]; other site 361100009546 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 361100009547 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 361100009548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100009549 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100009550 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 361100009551 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100009552 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100009553 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 361100009554 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 361100009555 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100009556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100009557 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 361100009558 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 361100009559 Septum formation initiator; Region: DivIC; cl11433 361100009560 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 361100009561 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100009562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 361100009563 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 361100009564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009565 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 361100009566 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 361100009567 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100009568 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 361100009569 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 361100009570 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 361100009571 hypothetical protein; Provisional; Region: PRK13670 361100009572 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 361100009573 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 361100009574 PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ...; Region: PDZ_LON_protease; cd00986 361100009575 protein binding site [polypeptide binding]; other site 361100009576 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 361100009577 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 361100009578 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 361100009579 active site 361100009580 nucleophile elbow; other site 361100009581 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 361100009582 Nucleoside recognition; Region: Gate; cl00486 361100009583 Nucleoside recognition; Region: Gate; cl00486 361100009584 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 361100009585 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 361100009586 active site 361100009587 (T/H)XGH motif; other site 361100009588 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100009589 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 361100009590 Protein of unknown function (DUF964); Region: DUF964; cl01483 361100009591 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100009592 catalytic core [active] 361100009593 YlbE-like protein; Region: YlbE; pfam14003 361100009594 Putative coat protein; Region: YlbD_coat; pfam14071 361100009595 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 361100009596 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 361100009597 YugN-like family; Region: YugN; pfam08868 361100009598 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 361100009599 multimer interface [polypeptide binding]; other site 361100009600 active site 361100009601 catalytic triad [active] 361100009602 dimer interface [polypeptide binding]; other site 361100009603 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 361100009604 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 361100009605 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 361100009606 Subunit I/III interface [polypeptide binding]; other site 361100009607 Subunit III/IV interface [polypeptide binding]; other site 361100009608 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 361100009609 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 361100009610 D-pathway; other site 361100009611 Putative ubiquinol binding site [chemical binding]; other site 361100009612 Low-spin heme (heme b) binding site [chemical binding]; other site 361100009613 Putative water exit pathway; other site 361100009614 Binuclear center (heme o3/CuB) [ion binding]; other site 361100009615 K-pathway; other site 361100009616 Putative proton exit pathway; other site 361100009617 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 361100009618 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 361100009619 Cytochrome c; Region: Cytochrom_C; cl11414 361100009620 UbiA prenyltransferase family; Region: UbiA; cl00337 361100009621 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 361100009622 pyruvate carboxylase; Reviewed; Region: PRK12999 361100009623 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 361100009624 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100009625 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 361100009626 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 361100009627 active site 361100009628 catalytic residues [active] 361100009629 metal binding site [ion binding]; metal-binding site 361100009630 homodimer binding site [polypeptide binding]; other site 361100009631 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 361100009632 carboxyltransferase (CT) interaction site; other site 361100009633 biotinylation site [posttranslational modification]; other site 361100009634 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 361100009635 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 361100009636 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 361100009637 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 361100009638 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 361100009639 putative active site [active] 361100009640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009641 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 361100009642 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; cl11558 361100009643 YlaH-like protein; Region: YlaH; pfam14036 361100009644 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 361100009645 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 361100009646 G1 box; other site 361100009647 putative GEF interaction site [polypeptide binding]; other site 361100009648 GTP/Mg2+ binding site [chemical binding]; other site 361100009649 Switch I region; other site 361100009650 G2 box; other site 361100009651 G3 box; other site 361100009652 Switch II region; other site 361100009653 G4 box; other site 361100009654 G5 box; other site 361100009655 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 361100009656 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 361100009657 potential frameshift: common BLAST hit: gi|217961444|ref|YP_002340012.1| inositol monophosphatase family protein 361100009658 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 361100009659 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 361100009660 active site 361100009661 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 361100009662 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 361100009663 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 361100009664 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 361100009665 homodimer interface [polypeptide binding]; other site 361100009666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100009667 catalytic residue [active] 361100009668 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 361100009669 transglutaminase; Provisional; Region: tgl; PRK03187 361100009670 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 361100009671 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 361100009672 Domain of unknown function (DUF4182); Region: DUF4182; pfam13790 361100009673 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 361100009674 Domain of unknown function (DUF1885); Region: DUF1885; pfam08968 361100009675 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 361100009676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100009677 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 361100009678 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 361100009679 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 361100009680 E3 interaction surface; other site 361100009681 lipoyl attachment site [posttranslational modification]; other site 361100009682 e3 binding domain; Region: E3_binding; pfam02817 361100009683 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 361100009684 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 361100009685 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 361100009686 alpha subunit interface [polypeptide binding]; other site 361100009687 TPP binding site [chemical binding]; other site 361100009688 heterodimer interface [polypeptide binding]; other site 361100009689 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100009690 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 361100009691 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 361100009692 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 361100009693 active site 361100009694 catalytic residues [active] 361100009695 metal binding site [ion binding]; metal-binding site 361100009696 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100009697 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100009698 active site 361100009699 motif I; other site 361100009700 motif II; other site 361100009701 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100009702 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 361100009703 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 361100009704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100009705 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 361100009706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009707 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 361100009708 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 361100009709 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 361100009710 metal binding site [ion binding]; metal-binding site 361100009711 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 361100009712 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 361100009713 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 361100009714 trimer interface [polypeptide binding]; other site 361100009715 active site 361100009716 substrate binding site [chemical binding]; other site 361100009717 CoA binding site [chemical binding]; other site 361100009718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100009719 Helix-turn-helix domains; Region: HTH; cl00088 361100009720 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100009721 dimerization interface [polypeptide binding]; other site 361100009722 FOG: CBS domain [General function prediction only]; Region: COG0517 361100009723 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 361100009724 Antirepressor AbbA; Region: AbbA_antirepres; pfam14156 361100009725 Protein of unknown function (DUF458); Region: DUF458; cl00861 361100009726 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 361100009727 catalytic residues [active] 361100009728 Protein of unknown function (DUF3993); Region: DUF3993; pfam13158 361100009729 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100009730 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 361100009731 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 361100009732 short chain dehydrogenase; Provisional; Region: PRK07677 361100009733 NAD(P) binding site [chemical binding]; other site 361100009734 substrate binding site [chemical binding]; other site 361100009735 homotetramer interface [polypeptide binding]; other site 361100009736 active site 361100009737 homodimer interface [polypeptide binding]; other site 361100009738 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 361100009739 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 361100009740 putative active site [active] 361100009741 putative metal binding site [ion binding]; other site 361100009742 potential frameshift: common BLAST hit: gi|217961482|ref|YP_002340050.1| polyphosphate kinase 361100009743 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 361100009744 putative active site [active] 361100009745 catalytic site [active] 361100009746 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 361100009747 putative domain interface [polypeptide binding]; other site 361100009748 putative active site [active] 361100009749 catalytic site [active] 361100009750 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 361100009751 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 361100009752 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 361100009753 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 361100009754 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 361100009755 YkyB-like protein; Region: YkyB; pfam14177 361100009756 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 361100009757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100009758 I-site; other site 361100009759 active site 361100009760 metal binding site [ion binding]; metal-binding site 361100009761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100009762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100009763 putative substrate translocation pore; other site 361100009764 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 361100009765 DNA binding residues [nucleotide binding] 361100009766 Probable transposase; Region: OrfB_IS605; pfam01385 361100009767 Helix-turn-helix domains; Region: HTH; cl00088 361100009768 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 361100009769 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 361100009770 THF binding site; other site 361100009771 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 361100009772 substrate binding site [chemical binding]; other site 361100009773 THF binding site; other site 361100009774 zinc-binding site [ion binding]; other site 361100009775 Competence protein J (ComJ); Region: ComJ; pfam11033 361100009776 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 361100009777 Protein of unknown function (DUF3967); Region: DUF3967; pfam13152 361100009778 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100009779 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100009780 dimer interface [polypeptide binding]; other site 361100009781 phosphorylation site [posttranslational modification] 361100009782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100009783 ATP binding site [chemical binding]; other site 361100009784 Mg2+ binding site [ion binding]; other site 361100009785 G-X-G motif; other site 361100009786 aminotransferase A; Validated; Region: PRK07683 361100009787 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100009788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100009789 homodimer interface [polypeptide binding]; other site 361100009790 catalytic residue [active] 361100009791 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100009792 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100009793 DNA binding site [nucleotide binding] 361100009794 domain linker motif; other site 361100009795 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 361100009796 putative dimerization interface [polypeptide binding]; other site 361100009797 putative ligand binding site [chemical binding]; other site 361100009798 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 361100009799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100009800 dimer interface [polypeptide binding]; other site 361100009801 conserved gate region; other site 361100009802 putative PBP binding loops; other site 361100009803 ABC-ATPase subunit interface; other site 361100009804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100009805 dimer interface [polypeptide binding]; other site 361100009806 conserved gate region; other site 361100009807 putative PBP binding loops; other site 361100009808 ABC-ATPase subunit interface; other site 361100009809 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 361100009810 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100009811 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 361100009812 homodimer interface [polypeptide binding]; other site 361100009813 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 361100009814 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 361100009815 active site 361100009816 homodimer interface [polypeptide binding]; other site 361100009817 catalytic site [active] 361100009818 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 361100009819 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 361100009820 Ca binding site [ion binding]; other site 361100009821 active site 361100009822 catalytic site [active] 361100009823 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 361100009824 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 361100009825 Walker A/P-loop; other site 361100009826 ATP binding site [chemical binding]; other site 361100009827 Q-loop/lid; other site 361100009828 ABC transporter signature motif; other site 361100009829 Walker B; other site 361100009830 D-loop; other site 361100009831 H-loop/switch region; other site 361100009832 TOBE domain; Region: TOBE_2; cl01440 361100009833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009834 NAD(P) binding site [chemical binding]; other site 361100009835 Protein of unknown function (DUF3997); Region: DUF3997; pfam13162 361100009836 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16917 361100009837 Predicted ATPase [General function prediction only]; Region: COG3910 361100009838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100009839 Walker A/P-loop; other site 361100009840 ATP binding site [chemical binding]; other site 361100009841 Q-loop/lid; other site 361100009842 ABC transporter signature motif; other site 361100009843 Walker B; other site 361100009844 D-loop; other site 361100009845 H-loop/switch region; other site 361100009846 putative acyltransferase; Provisional; Region: PRK05790 361100009847 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 361100009848 dimer interface [polypeptide binding]; other site 361100009849 active site 361100009850 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 361100009851 nudix motif; other site 361100009852 Protein of unknown function (DUF3928); Region: DUF3928; pfam13065 361100009853 hypothetical protein; Validated; Region: PRK07668 361100009854 hypothetical protein; Validated; Region: PRK07668 361100009855 Helix-turn-helix domains; Region: HTH; cl00088 361100009856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009857 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 361100009858 NAD(P) binding site [chemical binding]; other site 361100009859 active site 361100009860 YvrJ protein family; Region: YvrJ; pfam12841 361100009861 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 361100009862 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 361100009863 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100009864 Predicted amidohydrolase [General function prediction only]; Region: COG0388 361100009865 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 361100009866 putative active site [active] 361100009867 catalytic triad [active] 361100009868 putative dimer interface [polypeptide binding]; other site 361100009869 transaminase; Reviewed; Region: PRK08068 361100009870 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100009871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100009872 homodimer interface [polypeptide binding]; other site 361100009873 catalytic residue [active] 361100009874 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 361100009875 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 361100009876 dimer interface [polypeptide binding]; other site 361100009877 active site 361100009878 catalytic residue [active] 361100009879 metal binding site [ion binding]; metal-binding site 361100009880 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100009881 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 361100009882 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 361100009883 intersubunit interface [polypeptide binding]; other site 361100009884 active site 361100009885 Zn2+ binding site [ion binding]; other site 361100009886 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 361100009887 Cupin domain; Region: Cupin_2; cl09118 361100009888 Protein of unknown function (DUF3909); Region: DUF3909; pfam13077 361100009889 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 361100009890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100009891 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100009892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100009893 metal binding site [ion binding]; metal-binding site 361100009894 active site 361100009895 I-site; other site 361100009896 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 361100009897 dimer interface [polypeptide binding]; other site 361100009898 FMN binding site [chemical binding]; other site 361100009899 Protein of unknown function (DUF3915); Region: DUF3915; pfam13054 361100009900 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 361100009901 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 361100009902 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 361100009903 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 361100009904 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 361100009905 dimerization domain swap beta strand [polypeptide binding]; other site 361100009906 regulatory protein interface [polypeptide binding]; other site 361100009907 active site 361100009908 regulatory phosphorylation site [posttranslational modification]; other site 361100009909 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100009910 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 361100009911 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 361100009912 active site turn [active] 361100009913 phosphorylation site [posttranslational modification] 361100009914 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 361100009915 HPr interaction site; other site 361100009916 glycerol kinase (GK) interaction site [polypeptide binding]; other site 361100009917 active site 361100009918 phosphorylation site [posttranslational modification] 361100009919 transcriptional antiterminator BglG; Provisional; Region: PRK09772 361100009920 CAT RNA binding domain; Region: CAT_RBD; cl03904 361100009921 PRD domain; Region: PRD; cl15445 361100009922 PRD domain; Region: PRD; cl15445 361100009923 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100009924 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100009925 active site 361100009926 motif I; other site 361100009927 motif II; other site 361100009928 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100009929 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 361100009930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100009931 DNA-binding site [nucleotide binding]; DNA binding site 361100009932 UTRA domain; Region: UTRA; cl01230 361100009933 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 361100009934 active site 361100009935 trimer interface [polypeptide binding]; other site 361100009936 allosteric site; other site 361100009937 active site lid [active] 361100009938 hexamer (dimer of trimers) interface [polypeptide binding]; other site 361100009939 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 361100009940 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 361100009941 active site 361100009942 dimer interface [polypeptide binding]; other site 361100009943 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100009944 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 361100009945 ScpA/B protein; Region: ScpA_ScpB; cl00598 361100009946 Domain of unknown function (DUF309); Region: DUF309; cl00667 361100009947 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100009948 Coenzyme A binding pocket [chemical binding]; other site 361100009949 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 361100009950 active site 361100009951 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 361100009952 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 361100009953 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100009954 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100009955 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 361100009956 SpoVA protein; Region: SpoVA; cl04298 361100009957 stage V sporulation protein AD; Validated; Region: PRK08304 361100009958 stage V sporulation protein AD; Provisional; Region: PRK12404 361100009959 SpoVA protein; Region: SpoVA; cl04298 361100009960 Cortical protein marker for cell polarity; Region: Rax2; pfam12768 361100009961 Stage V sporulation protein AB; Region: SpoVAB; pfam13782 361100009962 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 361100009963 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 361100009964 sporulation sigma factor SigF; Validated; Region: PRK05572 361100009965 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100009966 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 361100009967 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100009968 DNA binding residues [nucleotide binding] 361100009969 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 361100009970 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100009971 ATP binding site [chemical binding]; other site 361100009972 Mg2+ binding site [ion binding]; other site 361100009973 G-X-G motif; other site 361100009974 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 361100009975 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100009976 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100009977 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 361100009978 Predicted transcriptional regulators [Transcription]; Region: COG1725 361100009979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100009980 DNA-binding site [nucleotide binding]; DNA binding site 361100009981 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100009982 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100009983 Walker A/P-loop; other site 361100009984 ATP binding site [chemical binding]; other site 361100009985 Q-loop/lid; other site 361100009986 ABC transporter signature motif; other site 361100009987 Walker B; other site 361100009988 D-loop; other site 361100009989 H-loop/switch region; other site 361100009990 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 361100009991 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100009992 Helix-turn-helix domains; Region: HTH; cl00088 361100009993 Helix-turn-helix domains; Region: HTH; cl00088 361100009994 Protein of unknown function (DUF541); Region: SIMPL; cl01077 361100009995 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 361100009996 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 361100009997 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 361100009998 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 361100009999 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 361100010000 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 361100010001 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 361100010002 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 361100010003 Sulfatase; Region: Sulfatase; cl10460 361100010004 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 361100010005 FixH; Region: FixH; cl01254 361100010006 FixH; Region: FixH; cl01254 361100010007 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 361100010008 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 361100010009 active site 361100010010 Int/Topo IB signature motif; other site 361100010011 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 361100010012 ferric uptake regulator; Provisional; Region: fur; PRK09462 361100010013 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 361100010014 metal binding site 2 [ion binding]; metal-binding site 361100010015 putative DNA binding helix; other site 361100010016 metal binding site 1 [ion binding]; metal-binding site 361100010017 dimer interface [polypeptide binding]; other site 361100010018 structural Zn2+ binding site [ion binding]; other site 361100010019 Integral membrane protein DUF95; Region: DUF95; cl00572 361100010020 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100010021 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 361100010022 dimer interface [polypeptide binding]; other site 361100010023 ADP-ribose binding site [chemical binding]; other site 361100010024 active site 361100010025 nudix motif; other site 361100010026 metal binding site [ion binding]; metal-binding site 361100010027 Protein of unknown function (DUF3936); Region: DUF3936; pfam13072 361100010028 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 361100010029 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100010030 active site 361100010031 catalytic tetrad [active] 361100010032 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100010033 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 361100010034 active site 361100010035 catalytic tetrad [active] 361100010036 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 361100010037 Protein of unknown function (DUF3886); Region: DUF3886; pfam13025 361100010038 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 361100010039 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 361100010040 putative active site [active] 361100010041 putative metal binding site [ion binding]; other site 361100010042 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 361100010043 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 361100010044 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100010045 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100010046 Predicted permease [General function prediction only]; Region: COG2056 361100010047 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 361100010048 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 361100010049 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100010050 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100010051 DNA binding site [nucleotide binding] 361100010052 domain linker motif; other site 361100010053 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 361100010054 dimerization interface [polypeptide binding]; other site 361100010055 ligand binding site [chemical binding]; other site 361100010056 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100010057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100010058 Coenzyme A binding pocket [chemical binding]; other site 361100010059 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 361100010060 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 361100010061 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 361100010062 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 361100010063 catalytic motif [active] 361100010064 Zn binding site [ion binding]; other site 361100010065 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 361100010066 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 361100010067 Lumazine binding domain; Region: Lum_binding; pfam00677 361100010068 Lumazine binding domain; Region: Lum_binding; pfam00677 361100010069 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 361100010070 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 361100010071 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 361100010072 dimerization interface [polypeptide binding]; other site 361100010073 active site 361100010074 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 361100010075 homopentamer interface [polypeptide binding]; other site 361100010076 active site 361100010077 biotin synthase; Validated; Region: PRK06256 361100010078 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100010079 FeS/SAM binding site; other site 361100010080 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 361100010081 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 361100010082 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100010083 S-adenosylmethionine binding site [chemical binding]; other site 361100010084 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100010085 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 361100010086 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 361100010087 substrate-cofactor binding pocket; other site 361100010088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010089 catalytic residue [active] 361100010090 AAA domain; Region: AAA_26; pfam13500 361100010091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010092 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 361100010093 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 361100010094 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100010095 inhibitor-cofactor binding pocket; inhibition site 361100010096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010097 catalytic residue [active] 361100010098 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 361100010099 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09418 361100010100 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 361100010101 active site 361100010102 metal binding site [ion binding]; metal-binding site 361100010103 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 361100010104 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 361100010105 active site 361100010106 catalytic triad [active] 361100010107 oxyanion hole [active] 361100010108 Helix-turn-helix domains; Region: HTH; cl00088 361100010109 ornithine carbamoyltransferase; Provisional; Region: PRK00779 361100010110 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 361100010111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010112 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 361100010113 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100010114 inhibitor-cofactor binding pocket; inhibition site 361100010115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010116 catalytic residue [active] 361100010117 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 361100010118 nucleotide binding site [chemical binding]; other site 361100010119 N-acetyl-L-glutamate binding site [chemical binding]; other site 361100010120 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 361100010121 heterotetramer interface [polypeptide binding]; other site 361100010122 active site pocket [active] 361100010123 cleavage site 361100010124 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 361100010125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010126 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 361100010127 YqzH-like protein; Region: YqzH; pfam14164 361100010128 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 361100010129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010130 NAD(P) binding site [chemical binding]; other site 361100010131 active site 361100010132 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100010133 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010134 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 361100010135 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 361100010136 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 361100010137 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 361100010138 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 361100010139 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 361100010140 putative L-serine binding site [chemical binding]; other site 361100010141 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100010142 Protein of unknown function (DUF3932); Region: DUF3932; pfam13068 361100010143 DNA polymerase IV; Validated; Region: PRK01810 361100010144 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 361100010145 active site 361100010146 DNA binding site [nucleotide binding] 361100010147 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 361100010148 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 361100010149 peptidase T-like protein; Region: PepT-like; TIGR01883 361100010150 metal binding site [ion binding]; metal-binding site 361100010151 putative dimer interface [polypeptide binding]; other site 361100010152 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100010153 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100010154 Protein of unknown function (DUF3894); Region: DUF3894; pfam13033 361100010155 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 361100010156 Predicted membrane protein [Function unknown]; Region: COG4129 361100010157 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 361100010158 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 361100010159 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 361100010160 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 361100010161 Walker A/P-loop; other site 361100010162 ATP binding site [chemical binding]; other site 361100010163 Q-loop/lid; other site 361100010164 ABC transporter signature motif; other site 361100010165 Walker B; other site 361100010166 D-loop; other site 361100010167 H-loop/switch region; other site 361100010168 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 361100010169 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100010170 dimer interface [polypeptide binding]; other site 361100010171 conserved gate region; other site 361100010172 putative PBP binding loops; other site 361100010173 ABC-ATPase subunit interface; other site 361100010174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 361100010175 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 361100010176 substrate binding pocket [chemical binding]; other site 361100010177 membrane-bound complex binding site; other site 361100010178 hinge residues; other site 361100010179 Disulphide isomerase; Region: Disulph_isomer; pfam06491 361100010180 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 361100010181 nudix motif; other site 361100010182 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100010183 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 361100010184 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 361100010185 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 361100010186 E3 interaction surface; other site 361100010187 lipoyl attachment site [posttranslational modification]; other site 361100010188 e3 binding domain; Region: E3_binding; pfam02817 361100010189 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 361100010190 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 361100010191 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 361100010192 alpha subunit interface [polypeptide binding]; other site 361100010193 TPP binding site [chemical binding]; other site 361100010194 heterodimer interface [polypeptide binding]; other site 361100010195 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100010196 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 361100010197 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 361100010198 tetramer interface [polypeptide binding]; other site 361100010199 TPP-binding site [chemical binding]; other site 361100010200 heterodimer interface [polypeptide binding]; other site 361100010201 phosphorylation loop region [posttranslational modification] 361100010202 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 361100010203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100010205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 361100010206 Acetokinase family; Region: Acetate_kinase; cl01029 361100010207 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 361100010208 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 361100010209 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 361100010210 NAD binding site [chemical binding]; other site 361100010211 Phe binding site; other site 361100010212 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 361100010213 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 361100010214 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 361100010215 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100010216 putative active site [active] 361100010217 heme pocket [chemical binding]; other site 361100010218 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100010219 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100010220 Walker A motif; other site 361100010221 ATP binding site [chemical binding]; other site 361100010222 Walker B motif; other site 361100010223 arginine finger; other site 361100010224 Helix-turn-helix domains; Region: HTH; cl00088 361100010225 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 361100010226 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 361100010227 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 361100010228 active site 361100010229 catalytic site [active] 361100010230 metal binding site [ion binding]; metal-binding site 361100010231 dimer interface [polypeptide binding]; other site 361100010232 YycC-like protein; Region: YycC; pfam14174 361100010233 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 361100010234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100010235 active site 361100010236 phosphorylation site [posttranslational modification] 361100010237 intermolecular recognition site; other site 361100010238 dimerization interface [polypeptide binding]; other site 361100010239 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 361100010240 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 361100010241 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 361100010242 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 361100010243 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 361100010244 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 361100010245 Walker A/P-loop; other site 361100010246 ATP binding site [chemical binding]; other site 361100010247 Q-loop/lid; other site 361100010248 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 361100010249 ABC transporter signature motif; other site 361100010250 Walker B; other site 361100010251 D-loop; other site 361100010252 H-loop/switch region; other site 361100010253 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 361100010254 arginine repressor; Provisional; Region: PRK04280 361100010255 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 361100010256 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100010257 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 361100010258 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 361100010259 TPP-binding site; other site 361100010260 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 361100010261 PYR/PP interface [polypeptide binding]; other site 361100010262 dimer interface [polypeptide binding]; other site 361100010263 TPP binding site [chemical binding]; other site 361100010264 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 361100010265 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 361100010266 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 361100010267 substrate binding pocket [chemical binding]; other site 361100010268 chain length determination region; other site 361100010269 substrate-Mg2+ binding site; other site 361100010270 catalytic residues [active] 361100010271 aspartate-rich region 1; other site 361100010272 active site lid residues [active] 361100010273 aspartate-rich region 2; other site 361100010274 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 361100010275 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 361100010276 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 361100010277 generic binding surface II; other site 361100010278 generic binding surface I; other site 361100010279 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 361100010280 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 361100010281 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 361100010282 homodimer interface [polypeptide binding]; other site 361100010283 NADP binding site [chemical binding]; other site 361100010284 substrate binding site [chemical binding]; other site 361100010285 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 361100010286 putative RNA binding site [nucleotide binding]; other site 361100010287 Asp23 family; Region: Asp23; cl00574 361100010288 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 361100010289 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 361100010290 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100010291 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 361100010292 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 361100010293 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 361100010294 carboxyltransferase (CT) interaction site; other site 361100010295 biotinylation site [posttranslational modification]; other site 361100010296 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 361100010297 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 361100010298 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 361100010299 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 361100010300 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 361100010301 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 361100010302 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 361100010303 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 361100010304 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 361100010305 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100010306 Walker A motif; other site 361100010307 ATP binding site [chemical binding]; other site 361100010308 Walker B motif; other site 361100010309 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 361100010310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100010311 elongation factor P; Validated; Region: PRK00529 361100010312 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 361100010313 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 361100010314 RNA binding site [nucleotide binding]; other site 361100010315 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 361100010316 RNA binding site [nucleotide binding]; other site 361100010317 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 361100010318 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 361100010319 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 361100010320 active site 361100010321 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 361100010322 trimer interface [polypeptide binding]; other site 361100010323 active site 361100010324 dimer interface [polypeptide binding]; other site 361100010325 Conserved membrane protein YqhR; Region: YqhR; pfam11085 361100010326 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 361100010327 manganese transport transcriptional regulator; Provisional; Region: PRK03902 361100010328 Helix-turn-helix domains; Region: HTH; cl00088 361100010329 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 361100010330 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 361100010331 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100010332 FeS/SAM binding site; other site 361100010333 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 361100010334 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 361100010335 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 361100010336 active site residue [active] 361100010337 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100010338 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100010339 DNA binding site [nucleotide binding] 361100010340 domain linker motif; other site 361100010341 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 361100010342 putative dimerization interface [polypeptide binding]; other site 361100010343 putative ligand binding site [chemical binding]; other site 361100010344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100010345 Helix-turn-helix domains; Region: HTH; cl00088 361100010346 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100010347 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 361100010348 Protein of unknown function (DUF3975); Region: DUF3975; pfam13126 361100010349 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100010350 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100010351 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100010352 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100010353 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100010354 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100010355 Walker A/P-loop; other site 361100010356 ATP binding site [chemical binding]; other site 361100010357 Q-loop/lid; other site 361100010358 ABC transporter signature motif; other site 361100010359 Walker B; other site 361100010360 D-loop; other site 361100010361 H-loop/switch region; other site 361100010362 Predicted transcriptional regulators [Transcription]; Region: COG1725 361100010363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100010364 DNA-binding site [nucleotide binding]; DNA binding site 361100010365 Protein of unknown function (DUF3929); Region: DUF3929; pfam13066 361100010366 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 361100010367 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 361100010368 tetramer interface [polypeptide binding]; other site 361100010369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010370 catalytic residue [active] 361100010371 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 361100010372 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 361100010373 tetramer interface [polypeptide binding]; other site 361100010374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010375 catalytic residue [active] 361100010376 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 361100010377 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 361100010378 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 361100010379 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 361100010380 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100010381 ATP binding site [chemical binding]; other site 361100010382 putative Mg++ binding site [ion binding]; other site 361100010383 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100010384 nucleotide binding region [chemical binding]; other site 361100010385 ATP-binding site [chemical binding]; other site 361100010386 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 361100010387 YqzE-like protein; Region: YqzE; pfam14038 361100010388 shikimate kinase; Reviewed; Region: aroK; PRK00131 361100010389 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 361100010390 ADP binding site [chemical binding]; other site 361100010391 magnesium binding site [ion binding]; other site 361100010392 putative shikimate binding site; other site 361100010393 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 361100010394 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 361100010395 ComG operon protein 7; Region: ComGG; pfam14173 361100010396 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 361100010397 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 361100010398 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 361100010399 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 361100010400 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 361100010401 Type II/IV secretion system protein; Region: T2SE; pfam00437 361100010402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010403 Walker A motif; other site 361100010404 ATP binding site [chemical binding]; other site 361100010405 Walker B motif; other site 361100010406 Helix-turn-helix domains; Region: HTH; cl00088 361100010407 Predicted transcriptional regulator [Transcription]; Region: COG2345 361100010408 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 361100010409 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100010410 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 361100010411 Protein of unknown function (DUF3912); Region: DUF3912; pfam13051 361100010412 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16920 361100010413 Protein of unknown function (DUF3966); Region: DUF3966; pfam13110 361100010414 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 361100010415 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 361100010416 active site 361100010417 homodimer interface [polypeptide binding]; other site 361100010418 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 361100010419 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 361100010420 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 361100010421 substrate binding pocket [chemical binding]; other site 361100010422 dimer interface [polypeptide binding]; other site 361100010423 inhibitor binding site; inhibition site 361100010424 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 361100010425 B12 binding site [chemical binding]; other site 361100010426 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 361100010427 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 361100010428 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 361100010429 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 361100010430 FAD binding site [chemical binding]; other site 361100010431 cystathionine gamma-synthase; Reviewed; Region: PRK08247 361100010432 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 361100010433 homodimer interface [polypeptide binding]; other site 361100010434 substrate-cofactor binding pocket; other site 361100010435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010436 catalytic residue [active] 361100010437 cystathionine beta-lyase; Provisional; Region: PRK08064 361100010438 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 361100010439 homodimer interface [polypeptide binding]; other site 361100010440 substrate-cofactor binding pocket; other site 361100010441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010442 catalytic residue [active] 361100010443 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100010444 catalytic triad [active] 361100010445 conserved cis-peptide bond; other site 361100010446 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100010447 dimerization interface [polypeptide binding]; other site 361100010448 putative DNA binding site [nucleotide binding]; other site 361100010449 putative Zn2+ binding site [ion binding]; other site 361100010450 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 361100010451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100010452 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 361100010453 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 361100010454 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 361100010455 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 361100010456 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 361100010457 potential frameshift: common BLAST hit: gi|217961758|ref|YP_002340328.1| nucleotidyl transferase family protein 361100010458 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 361100010459 active site 361100010460 metal binding site [ion binding]; metal-binding site 361100010461 substrate binding site [chemical binding]; other site 361100010462 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 361100010463 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 361100010464 active site 361100010465 Substrate binding site; other site 361100010466 Mg++ binding site; other site 361100010467 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 361100010468 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 361100010469 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 361100010470 PhoU domain; Region: PhoU; pfam01895 361100010471 PhoU domain; Region: PhoU; pfam01895 361100010472 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 361100010473 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 361100010474 Walker A/P-loop; other site 361100010475 ATP binding site [chemical binding]; other site 361100010476 Q-loop/lid; other site 361100010477 ABC transporter signature motif; other site 361100010478 Walker B; other site 361100010479 D-loop; other site 361100010480 H-loop/switch region; other site 361100010481 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 361100010482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100010483 dimer interface [polypeptide binding]; other site 361100010484 conserved gate region; other site 361100010485 putative PBP binding loops; other site 361100010486 ABC-ATPase subunit interface; other site 361100010487 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 361100010488 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100010489 dimer interface [polypeptide binding]; other site 361100010490 conserved gate region; other site 361100010491 putative PBP binding loops; other site 361100010492 ABC-ATPase subunit interface; other site 361100010493 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100010494 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 361100010495 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100010496 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100010497 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100010498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100010499 putative substrate translocation pore; other site 361100010500 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 361100010501 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 361100010502 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 361100010503 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 361100010504 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 361100010505 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 361100010506 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 361100010507 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 361100010508 metal binding site 2 [ion binding]; metal-binding site 361100010509 putative DNA binding helix; other site 361100010510 metal binding site 1 [ion binding]; metal-binding site 361100010511 dimer interface [polypeptide binding]; other site 361100010512 structural Zn2+ binding site [ion binding]; other site 361100010513 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100010514 ABC-ATPase subunit interface; other site 361100010515 dimer interface [polypeptide binding]; other site 361100010516 putative PBP binding regions; other site 361100010517 potential frameshift: common BLAST hit: gi|217961772|ref|YP_002340342.1| cation ABC transporter, ATP-binding protein 361100010518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010519 ABC transporter signature motif; other site 361100010520 Walker B; other site 361100010521 D-loop; other site 361100010522 H-loop/switch region; other site 361100010523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010524 Walker A/P-loop; other site 361100010525 ATP binding site [chemical binding]; other site 361100010526 Q-loop/lid; other site 361100010527 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100010528 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100010529 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 361100010530 endonuclease IV; Provisional; Region: PRK01060 361100010531 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 361100010532 AP (apurinic/apyrimidinic) site pocket; other site 361100010533 DNA interaction; other site 361100010534 Metal-binding active site; metal-binding site 361100010535 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 361100010536 DEAD-like helicases superfamily; Region: DEXDc; smart00487 361100010537 ATP binding site [chemical binding]; other site 361100010538 Mg++ binding site [ion binding]; other site 361100010539 motif III; other site 361100010540 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100010541 nucleotide binding region [chemical binding]; other site 361100010542 ATP-binding site [chemical binding]; other site 361100010543 YqfQ-like protein; Region: YqfQ; pfam14181 361100010544 LytB protein; Region: LYTB; cl00507 361100010545 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 361100010546 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 361100010547 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 361100010548 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 361100010549 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100010550 Cytochrome c; Region: Cytochrom_C; cl11414 361100010551 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 361100010552 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 361100010553 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 361100010554 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100010555 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 361100010556 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100010557 DNA binding residues [nucleotide binding] 361100010558 DNA primase; Validated; Region: dnaG; PRK05667 361100010559 CHC2 zinc finger; Region: zf-CHC2; cl15369 361100010560 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 361100010561 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 361100010562 active site 361100010563 metal binding site [ion binding]; metal-binding site 361100010564 interdomain interaction site; other site 361100010565 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 361100010566 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 361100010567 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 361100010568 Helix-turn-helix domains; Region: HTH; cl00088 361100010569 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 361100010570 FOG: CBS domain [General function prediction only]; Region: COG0517 361100010571 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 361100010572 Recombination protein O N terminal; Region: RecO_N; cl15812 361100010573 Recombination protein O C terminal; Region: RecO_C; pfam02565 361100010574 YqzL-like protein; Region: YqzL; pfam14006 361100010575 GTPase Era; Reviewed; Region: era; PRK00089 361100010576 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 361100010577 G1 box; other site 361100010578 GTP/Mg2+ binding site [chemical binding]; other site 361100010579 Switch I region; other site 361100010580 G2 box; other site 361100010581 Switch II region; other site 361100010582 G3 box; other site 361100010583 G4 box; other site 361100010584 G5 box; other site 361100010585 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 361100010586 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 361100010587 active site 361100010588 catalytic motif [active] 361100010589 Zn binding site [ion binding]; other site 361100010590 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 361100010591 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 361100010592 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 361100010593 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 361100010594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 361100010595 Zn2+ binding site [ion binding]; other site 361100010596 Mg2+ binding site [ion binding]; other site 361100010597 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 361100010598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010599 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 361100010600 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 361100010601 GatB domain; Region: GatB_Yqey; cl11497 361100010602 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 361100010603 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 361100010604 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 361100010605 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100010606 FeS/SAM binding site; other site 361100010607 TRAM domain; Region: TRAM; cl01282 361100010608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 361100010609 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 361100010610 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 361100010611 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100010612 S-adenosylmethionine binding site [chemical binding]; other site 361100010613 chaperone protein DnaJ; Provisional; Region: PRK14280 361100010614 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 361100010615 HSP70 interaction site [polypeptide binding]; other site 361100010616 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 361100010617 substrate binding site [polypeptide binding]; other site 361100010618 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 361100010619 Zn binding sites [ion binding]; other site 361100010620 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 361100010621 dimer interface [polypeptide binding]; other site 361100010622 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 361100010623 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 361100010624 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 361100010625 dimer interface [polypeptide binding]; other site 361100010626 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 361100010627 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 361100010628 Helix-turn-helix domains; Region: HTH; cl00088 361100010629 HrcA protein C terminal domain; Region: HrcA; pfam01628 361100010630 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 361100010631 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100010632 FeS/SAM binding site; other site 361100010633 HemN C-terminal domain; Region: HemN_C; pfam06969 361100010634 Helix-turn-helix domains; Region: HTH; cl00088 361100010635 GTP-binding protein LepA; Provisional; Region: PRK05433 361100010636 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 361100010637 G1 box; other site 361100010638 putative GEF interaction site [polypeptide binding]; other site 361100010639 GTP/Mg2+ binding site [chemical binding]; other site 361100010640 Switch I region; other site 361100010641 G2 box; other site 361100010642 G3 box; other site 361100010643 Switch II region; other site 361100010644 G4 box; other site 361100010645 G5 box; other site 361100010646 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 361100010647 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 361100010648 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 361100010649 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 361100010650 Germination protease; Region: Peptidase_A25; cl04057 361100010651 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 361100010652 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 361100010653 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 361100010654 YqzM-like protein; Region: YqzM; pfam14141 361100010655 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 361100010656 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 361100010657 Competence protein; Region: Competence; cl00471 361100010658 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100010659 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 361100010660 catalytic motif [active] 361100010661 Zn binding site [ion binding]; other site 361100010662 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 361100010663 SLBB domain; Region: SLBB; pfam10531 361100010664 comEA protein; Region: comE; TIGR01259 361100010665 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 361100010666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010667 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 361100010668 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 361100010669 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100010670 S-adenosylmethionine binding site [chemical binding]; other site 361100010671 Oligomerisation domain; Region: Oligomerisation; cl00519 361100010672 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 361100010673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100010674 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 361100010675 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 361100010676 active site 361100010677 (T/H)XGH motif; other site 361100010678 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 361100010679 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 361100010680 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 361100010681 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 361100010682 shikimate binding site; other site 361100010683 NAD(P) binding site [chemical binding]; other site 361100010684 GTPase YqeH; Provisional; Region: PRK13796 361100010685 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 361100010686 GTP/Mg2+ binding site [chemical binding]; other site 361100010687 G4 box; other site 361100010688 G5 box; other site 361100010689 G1 box; other site 361100010690 Switch I region; other site 361100010691 G2 box; other site 361100010692 G3 box; other site 361100010693 Switch II region; other site 361100010694 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 361100010695 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100010696 active site 361100010697 motif I; other site 361100010698 motif II; other site 361100010699 Sporulation inhibitor A; Region: Sda; pfam08970 361100010700 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 361100010701 sporulation sigma factor SigK; Reviewed; Region: PRK05803 361100010702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100010703 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100010704 DNA binding residues [nucleotide binding] 361100010705 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 361100010706 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 361100010707 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 361100010708 synthetase active site [active] 361100010709 NTP binding site [chemical binding]; other site 361100010710 metal binding site [ion binding]; metal-binding site 361100010711 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 361100010712 dimer interface [polypeptide binding]; other site 361100010713 Alkaline phosphatase homologues; Region: alkPPc; smart00098 361100010714 active site 361100010715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100010716 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100010717 Coenzyme A binding pocket [chemical binding]; other site 361100010718 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100010719 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100010720 CHAT domain; Region: CHAT; pfam12770 361100010721 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 361100010722 catalytic core [active] 361100010723 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 361100010724 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 361100010725 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 361100010726 putative active site [active] 361100010727 catalytic triad [active] 361100010728 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 361100010729 putative integrin binding motif; other site 361100010730 PA/protease domain interface [polypeptide binding]; other site 361100010731 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 361100010732 FlgD Ig-like domain; Region: FlgD_ig; cl15790 361100010733 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 361100010734 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 361100010735 cofactor binding site; other site 361100010736 metal binding site [ion binding]; metal-binding site 361100010737 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 361100010738 aromatic arch; other site 361100010739 DCoH dimer interaction site [polypeptide binding]; other site 361100010740 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 361100010741 DCoH tetramer interaction site [polypeptide binding]; other site 361100010742 substrate binding site [chemical binding]; other site 361100010743 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 361100010744 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 361100010745 putative metal binding site [ion binding]; other site 361100010746 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 361100010747 active site 361100010748 metal binding site [ion binding]; metal-binding site 361100010749 DoxX; Region: DoxX; cl00976 361100010750 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 361100010751 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100010752 non-specific DNA binding site [nucleotide binding]; other site 361100010753 salt bridge; other site 361100010754 sequence-specific DNA binding site [nucleotide binding]; other site 361100010755 Cupin domain; Region: Cupin_2; cl09118 361100010756 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 361100010757 active site 2 [active] 361100010758 active site 1 [active] 361100010759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100010760 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 361100010761 Coenzyme A binding pocket [chemical binding]; other site 361100010762 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100010763 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100010764 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 361100010765 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100010766 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100010767 Walker A/P-loop; other site 361100010768 ATP binding site [chemical binding]; other site 361100010769 Q-loop/lid; other site 361100010770 ABC transporter signature motif; other site 361100010771 Walker B; other site 361100010772 D-loop; other site 361100010773 H-loop/switch region; other site 361100010774 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 361100010775 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100010776 ABC-ATPase subunit interface; other site 361100010777 dimer interface [polypeptide binding]; other site 361100010778 putative PBP binding regions; other site 361100010779 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 361100010780 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 361100010781 intersubunit interface [polypeptide binding]; other site 361100010782 YrhC-like protein; Region: YrhC; pfam14143 361100010783 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 361100010784 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 361100010785 putative catalytic cysteine [active] 361100010786 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 361100010787 putative active site [active] 361100010788 metal binding site [ion binding]; metal-binding site 361100010789 cystathionine beta-lyase; Provisional; Region: PRK07671 361100010790 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 361100010791 homodimer interface [polypeptide binding]; other site 361100010792 substrate-cofactor binding pocket; other site 361100010793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010794 catalytic residue [active] 361100010795 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 361100010796 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 361100010797 dimer interface [polypeptide binding]; other site 361100010798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100010799 catalytic residue [active] 361100010800 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 361100010801 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100010802 S-adenosylmethionine binding site [chemical binding]; other site 361100010803 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 361100010804 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 361100010805 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 361100010806 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 361100010807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100010808 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 361100010809 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 361100010810 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 361100010811 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 361100010812 ATP-binding site [chemical binding]; other site 361100010813 Sugar specificity; other site 361100010814 Pyrimidine base specificity; other site 361100010815 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 361100010816 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 361100010817 Peptidase family U32; Region: Peptidase_U32; cl03113 361100010818 Peptidase family U32; Region: Peptidase_U32; cl03113 361100010819 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 361100010820 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100010821 S-adenosylmethionine binding site [chemical binding]; other site 361100010822 YceG-like family; Region: YceG; pfam02618 361100010823 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 361100010824 dimerization interface [polypeptide binding]; other site 361100010825 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 361100010826 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 361100010827 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 361100010828 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 361100010829 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 361100010830 motif 1; other site 361100010831 active site 361100010832 motif 2; other site 361100010833 motif 3; other site 361100010834 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 361100010835 DHHA1 domain; Region: DHHA1; pfam02272 361100010836 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 361100010837 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 361100010838 Protein of unknown function (DUF3918); Region: DUF3918; pfam13056 361100010839 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 361100010840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010841 Family description; Region: UvrD_C_2; cl15862 361100010842 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100010843 binding surface 361100010844 TPR motif; other site 361100010845 TPR repeat; Region: TPR_11; pfam13414 361100010846 TPR repeat; Region: TPR_11; pfam13414 361100010847 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100010848 binding surface 361100010849 TPR motif; other site 361100010850 TPR repeat; Region: TPR_11; pfam13414 361100010851 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 361100010852 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 361100010853 Ligand Binding Site [chemical binding]; other site 361100010854 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100010855 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 361100010856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100010857 catalytic residue [active] 361100010858 Predicted transcriptional regulator [Transcription]; Region: COG1959 361100010859 Helix-turn-helix domains; Region: HTH; cl00088 361100010860 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100010861 Walker A motif; other site 361100010862 ATP binding site [chemical binding]; other site 361100010863 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100010864 Walker B motif; other site 361100010865 recombination factor protein RarA; Provisional; Region: PRK14700 361100010866 arginine finger; other site 361100010867 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 361100010868 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 361100010869 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 361100010870 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 361100010871 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 361100010872 putative ATP binding site [chemical binding]; other site 361100010873 putative substrate interface [chemical binding]; other site 361100010874 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 361100010875 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 361100010876 dimer interface [polypeptide binding]; other site 361100010877 anticodon binding site; other site 361100010878 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 361100010879 homodimer interface [polypeptide binding]; other site 361100010880 motif 1; other site 361100010881 active site 361100010882 motif 2; other site 361100010883 GAD domain; Region: GAD; pfam02938 361100010884 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 361100010885 motif 3; other site 361100010886 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 361100010887 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 361100010888 dimer interface [polypeptide binding]; other site 361100010889 motif 1; other site 361100010890 active site 361100010891 motif 2; other site 361100010892 motif 3; other site 361100010893 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 361100010894 anticodon binding site; other site 361100010895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100010896 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100010897 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 361100010898 putative active site [active] 361100010899 dimerization interface [polypeptide binding]; other site 361100010900 putative tRNAtyr binding site [nucleotide binding]; other site 361100010901 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 361100010902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100010903 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 361100010904 synthetase active site [active] 361100010905 NTP binding site [chemical binding]; other site 361100010906 metal binding site [ion binding]; metal-binding site 361100010907 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 361100010908 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 361100010909 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 361100010910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100010911 active site 361100010912 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 361100010913 DHH family; Region: DHH; pfam01368 361100010914 DHHA1 domain; Region: DHHA1; pfam02272 361100010915 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 361100010916 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 361100010917 Cation efflux family; Region: Cation_efflux; cl00316 361100010918 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 361100010919 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 361100010920 Protein export membrane protein; Region: SecD_SecF; cl14618 361100010921 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 361100010922 Protein export membrane protein; Region: SecD_SecF; cl14618 361100010923 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 361100010924 stage V sporulation protein B; Region: spore_V_B; TIGR02900 361100010925 MatE; Region: MatE; cl10513 361100010926 MatE; Region: MatE; cl10513 361100010927 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100010928 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 361100010929 Preprotein translocase subunit; Region: YajC; cl00806 361100010930 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 361100010931 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 361100010932 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 361100010933 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 361100010934 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 361100010935 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 361100010936 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100010937 Walker A motif; other site 361100010938 ATP binding site [chemical binding]; other site 361100010939 Walker B motif; other site 361100010940 arginine finger; other site 361100010941 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 361100010942 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 361100010943 RuvA N terminal domain; Region: RuvA_N; pfam01330 361100010944 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 361100010945 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100010946 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 361100010947 putative ligand binding residues [chemical binding]; other site 361100010948 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 361100010949 BofC C-terminal domain; Region: BofC_C; pfam08955 361100010950 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 361100010951 EamA-like transporter family; Region: EamA; cl01037 361100010952 EamA-like transporter family; Region: EamA; cl01037 361100010953 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100010954 dimerization interface [polypeptide binding]; other site 361100010955 putative DNA binding site [nucleotide binding]; other site 361100010956 putative Zn2+ binding site [ion binding]; other site 361100010957 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 361100010958 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100010959 putative peptidoglycan binding site; other site 361100010960 Quinolinate synthetase A protein; Region: NadA; cl00420 361100010961 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 361100010962 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 361100010963 dimerization interface [polypeptide binding]; other site 361100010964 active site 361100010965 L-aspartate oxidase; Provisional; Region: PRK08071 361100010966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100010967 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 361100010968 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100010969 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 361100010970 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100010971 catalytic residue [active] 361100010972 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 361100010973 Helix-turn-helix domains; Region: HTH; cl00088 361100010974 3H domain; Region: 3H; pfam02829 361100010975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 361100010976 MOSC domain; Region: MOSC; pfam03473 361100010977 3-alpha domain; Region: 3-alpha; pfam03475 361100010978 prephenate dehydratase; Provisional; Region: PRK11898 361100010979 Prephenate dehydratase; Region: PDT; pfam00800 361100010980 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 361100010981 putative L-Phe binding site [chemical binding]; other site 361100010982 FtsX-like permease family; Region: FtsX; cl15850 361100010983 FtsX-like permease family; Region: FtsX; cl15850 361100010984 FtsX-like permease family; Region: FtsX; cl15850 361100010985 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100010986 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100010987 Walker A/P-loop; other site 361100010988 ATP binding site [chemical binding]; other site 361100010989 Q-loop/lid; other site 361100010990 ABC transporter signature motif; other site 361100010991 Walker B; other site 361100010992 D-loop; other site 361100010993 H-loop/switch region; other site 361100010994 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 361100010995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100010996 ATP binding site [chemical binding]; other site 361100010997 Mg2+ binding site [ion binding]; other site 361100010998 G-X-G motif; other site 361100010999 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100011000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100011001 active site 361100011002 phosphorylation site [posttranslational modification] 361100011003 intermolecular recognition site; other site 361100011004 dimerization interface [polypeptide binding]; other site 361100011005 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100011006 DNA binding site [nucleotide binding] 361100011007 GTPase CgtA; Reviewed; Region: obgE; PRK12297 361100011008 GTP1/OBG; Region: GTP1_OBG; pfam01018 361100011009 Obg GTPase; Region: Obg; cd01898 361100011010 G1 box; other site 361100011011 GTP/Mg2+ binding site [chemical binding]; other site 361100011012 Switch I region; other site 361100011013 G2 box; other site 361100011014 G3 box; other site 361100011015 Switch II region; other site 361100011016 G4 box; other site 361100011017 G5 box; other site 361100011018 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 361100011019 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 361100011020 Protein of unknown function (DUF464); Region: DUF464; cl01080 361100011021 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 361100011022 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 361100011023 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 361100011024 homodimer interface [polypeptide binding]; other site 361100011025 oligonucleotide binding site [chemical binding]; other site 361100011026 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 361100011027 active site 361100011028 putative substrate binding region [chemical binding]; other site 361100011029 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100011030 septum site-determining protein MinD; Region: minD_bact; TIGR01968 361100011031 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 361100011032 Switch I; other site 361100011033 Switch II; other site 361100011034 septum formation inhibitor; Reviewed; Region: minC; PRK00513 361100011035 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 361100011036 rod shape-determining protein MreD; Region: MreD; cl01087 361100011037 rod shape-determining protein MreC; Provisional; Region: PRK13922 361100011038 rod shape-determining protein MreC; Region: MreC; pfam04085 361100011039 rod shape-determining protein MreB; Provisional; Region: PRK13927 361100011040 Cell division protein FtsA; Region: FtsA; cl11496 361100011041 hypothetical protein; Reviewed; Region: PRK00024 361100011042 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 361100011043 MPN+ (JAMM) motif; other site 361100011044 Zinc-binding site [ion binding]; other site 361100011045 Maf-like protein; Region: Maf; pfam02545 361100011046 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 361100011047 active site 361100011048 dimer interface [polypeptide binding]; other site 361100011049 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 361100011050 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100011051 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100011052 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 361100011053 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 361100011054 active site 361100011055 HIGH motif; other site 361100011056 nucleotide binding site [chemical binding]; other site 361100011057 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 361100011058 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 361100011059 active site 361100011060 KMSKS motif; other site 361100011061 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 361100011062 tRNA binding surface [nucleotide binding]; other site 361100011063 anticodon binding site; other site 361100011064 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 361100011065 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011066 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 361100011067 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 361100011068 putative peptidoglycan binding site; other site 361100011069 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 361100011070 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 361100011071 inhibitor-cofactor binding pocket; inhibition site 361100011072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100011073 catalytic residue [active] 361100011074 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 361100011075 dimer interface [polypeptide binding]; other site 361100011076 active site 361100011077 Schiff base residues; other site 361100011078 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 361100011079 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 361100011080 active site 361100011081 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 361100011082 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 361100011083 domain interfaces; other site 361100011084 active site 361100011085 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 361100011086 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 361100011087 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 361100011088 tRNA; other site 361100011089 putative tRNA binding site [nucleotide binding]; other site 361100011090 putative NADP binding site [chemical binding]; other site 361100011091 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 361100011092 Transcriptional regulators [Transcription]; Region: MarR; COG1846 361100011093 Helix-turn-helix domains; Region: HTH; cl00088 361100011094 OsmC-like protein; Region: OsmC; cl00767 361100011095 Predicted GTPase [General function prediction only]; Region: COG0218 361100011096 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 361100011097 G1 box; other site 361100011098 GTP/Mg2+ binding site [chemical binding]; other site 361100011099 Switch I region; other site 361100011100 G2 box; other site 361100011101 G3 box; other site 361100011102 Switch II region; other site 361100011103 G4 box; other site 361100011104 G5 box; other site 361100011105 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 361100011106 Found in ATP-dependent protease La (LON); Region: LON; smart00464 361100011107 Found in ATP-dependent protease La (LON); Region: LON; smart00464 361100011108 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100011109 Walker A motif; other site 361100011110 ATP binding site [chemical binding]; other site 361100011111 Walker B motif; other site 361100011112 arginine finger; other site 361100011113 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 361100011114 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 361100011115 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100011116 Walker A motif; other site 361100011117 ATP binding site [chemical binding]; other site 361100011118 Walker B motif; other site 361100011119 arginine finger; other site 361100011120 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 361100011121 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 361100011122 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 361100011123 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100011124 Walker A motif; other site 361100011125 ATP binding site [chemical binding]; other site 361100011126 Walker B motif; other site 361100011127 arginine finger; other site 361100011128 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 361100011129 trigger factor; Provisional; Region: tig; PRK01490 361100011130 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 361100011131 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 361100011132 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 361100011133 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 361100011134 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100011135 non-specific DNA binding site [nucleotide binding]; other site 361100011136 salt bridge; other site 361100011137 sequence-specific DNA binding site [nucleotide binding]; other site 361100011138 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 361100011139 Helix-turn-helix domains; Region: HTH; cl00088 361100011140 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100011141 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100011142 catalytic residues [active] 361100011143 catalytic nucleophile [active] 361100011144 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100011145 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100011146 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100011147 Synaptic Site I dimer interface [polypeptide binding]; other site 361100011148 DNA binding site [nucleotide binding] 361100011149 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 361100011150 trimer interface [polypeptide binding]; other site 361100011151 active site 361100011152 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 361100011153 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 361100011154 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100011155 active site 361100011156 DNA binding site [nucleotide binding] 361100011157 Int/Topo IB signature motif; other site 361100011158 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 361100011159 active site 361100011160 metal binding site [ion binding]; metal-binding site 361100011161 homotetramer interface [polypeptide binding]; other site 361100011162 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 361100011163 active site 361100011164 dimerization interface [polypeptide binding]; other site 361100011165 ribonuclease PH; Reviewed; Region: rph; PRK00173 361100011166 Ribonuclease PH; Region: RNase_PH_bact; cd11362 361100011167 hexamer interface [polypeptide binding]; other site 361100011168 active site 361100011169 Sporulation and spore germination; Region: Germane; cl11253 361100011170 Spore germination protein [General function prediction only]; Region: COG5401 361100011171 Sporulation and spore germination; Region: Germane; cl11253 361100011172 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 361100011173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100011175 putative substrate translocation pore; other site 361100011176 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011177 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 361100011178 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 361100011179 potential catalytic triad [active] 361100011180 conserved cys residue [active] 361100011181 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100011182 Helix-turn-helix domains; Region: HTH; cl00088 361100011183 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 361100011184 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 361100011185 potential catalytic triad [active] 361100011186 conserved cys residue [active] 361100011187 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 361100011188 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 361100011189 catalytic residues [active] 361100011190 catalytic nucleophile [active] 361100011191 Recombinase; Region: Recombinase; pfam07508 361100011192 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 361100011193 phosphodiesterase; Provisional; Region: PRK12704 361100011194 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 361100011195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100011196 ABC transporter signature motif; other site 361100011197 Walker B; other site 361100011198 D-loop; other site 361100011199 H-loop/switch region; other site 361100011200 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 361100011201 catalytic residues [active] 361100011202 catalytic nucleophile [active] 361100011203 Recombinase; Region: Recombinase; pfam07508 361100011204 endonuclease subunit; Provisional; Region: 46; PHA02562 361100011205 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 361100011206 catalytic residues [active] 361100011207 catalytic nucleophile [active] 361100011208 Recombinase; Region: Recombinase; pfam07508 361100011209 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 361100011210 DHH family; Region: DHH; pfam01368 361100011211 DHHA1 domain; Region: DHHA1; pfam02272 361100011212 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100011213 putative uracil/xanthine transporter; Provisional; Region: PRK11412 361100011214 putative deaminase; Validated; Region: PRK06846 361100011215 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 361100011216 active site 361100011217 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 361100011218 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100011219 non-specific DNA binding site [nucleotide binding]; other site 361100011220 salt bridge; other site 361100011221 sequence-specific DNA binding site [nucleotide binding]; other site 361100011222 Cupin domain; Region: Cupin_2; cl09118 361100011223 EamA-like transporter family; Region: EamA; cl01037 361100011224 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 361100011225 amphipathic channel; other site 361100011226 Asn-Pro-Ala signature motifs; other site 361100011227 Predicted transcriptional regulator [Transcription]; Region: COG1959 361100011228 Helix-turn-helix domains; Region: HTH; cl00088 361100011229 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 361100011230 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 361100011231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100011232 Walker A/P-loop; other site 361100011233 ATP binding site [chemical binding]; other site 361100011234 Q-loop/lid; other site 361100011235 ABC transporter signature motif; other site 361100011236 Walker B; other site 361100011237 D-loop; other site 361100011238 H-loop/switch region; other site 361100011239 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 361100011240 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 361100011241 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 361100011242 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 361100011243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 361100011244 ligand binding site [chemical binding]; other site 361100011245 flagellar motor protein MotA; Validated; Region: PRK08124 361100011246 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 361100011247 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 361100011248 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 361100011249 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 361100011250 active site 361100011251 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 361100011252 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 361100011253 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 361100011254 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 361100011255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011256 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 361100011257 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 361100011258 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 361100011259 putative Iron-sulfur protein interface [polypeptide binding]; other site 361100011260 proximal heme binding site [chemical binding]; other site 361100011261 distal heme binding site [chemical binding]; other site 361100011262 putative dimer interface [polypeptide binding]; other site 361100011263 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 361100011264 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 361100011265 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 361100011266 GIY-YIG motif/motif A; other site 361100011267 active site 361100011268 catalytic site [active] 361100011269 putative DNA binding site [nucleotide binding]; other site 361100011270 metal binding site [ion binding]; metal-binding site 361100011271 UvrB/uvrC motif; Region: UVR; pfam02151 361100011272 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 361100011273 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100011274 catalytic residues [active] 361100011275 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 361100011276 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 361100011277 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 361100011278 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 361100011279 Ligand binding site [chemical binding]; other site 361100011280 Electron transfer flavoprotein domain; Region: ETF; pfam01012 361100011281 enoyl-CoA hydratase; Provisional; Region: PRK07658 361100011282 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100011283 substrate binding site [chemical binding]; other site 361100011284 oxyanion hole (OAH) forming residues; other site 361100011285 trimer interface [polypeptide binding]; other site 361100011286 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 361100011287 Helix-turn-helix domains; Region: HTH; cl00088 361100011288 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 361100011289 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 361100011290 AMP-binding enzyme; Region: AMP-binding; cl15778 361100011291 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011292 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 361100011293 DinB superfamily; Region: DinB_2; pfam12867 361100011294 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 361100011295 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 361100011296 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 361100011297 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 361100011298 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100011299 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 361100011300 Walker A/P-loop; other site 361100011301 ATP binding site [chemical binding]; other site 361100011302 Q-loop/lid; other site 361100011303 ABC transporter signature motif; other site 361100011304 Walker B; other site 361100011305 D-loop; other site 361100011306 H-loop/switch region; other site 361100011307 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100011308 dimer interface [polypeptide binding]; other site 361100011309 phosphorylation site [posttranslational modification] 361100011310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100011311 ATP binding site [chemical binding]; other site 361100011312 Mg2+ binding site [ion binding]; other site 361100011313 G-X-G motif; other site 361100011314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100011315 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100011316 active site 361100011317 phosphorylation site [posttranslational modification] 361100011318 intermolecular recognition site; other site 361100011319 dimerization interface [polypeptide binding]; other site 361100011320 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100011321 DNA binding site [nucleotide binding] 361100011322 Uncharacterized conserved protein (DUF2196); Region: DUF2196; cl02044 361100011323 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 361100011324 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 361100011325 putative RNA binding site [nucleotide binding]; other site 361100011326 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 361100011327 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100011328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011329 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]; Region: COG5077 361100011330 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 361100011331 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 361100011332 active site 361100011333 catalytic site [active] 361100011334 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100011335 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100011336 Walker A/P-loop; other site 361100011337 ATP binding site [chemical binding]; other site 361100011338 Q-loop/lid; other site 361100011339 ABC transporter signature motif; other site 361100011340 Walker B; other site 361100011341 D-loop; other site 361100011342 H-loop/switch region; other site 361100011343 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100011344 dimer interface [polypeptide binding]; other site 361100011345 putative PBP binding regions; other site 361100011346 ABC-ATPase subunit interface; other site 361100011347 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 361100011348 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 361100011349 intersubunit interface [polypeptide binding]; other site 361100011350 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011351 heme-binding site [chemical binding]; other site 361100011352 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011353 heme-binding site [chemical binding]; other site 361100011354 hypothetical protein; Provisional; Region: PHA03169 361100011355 Repeat of unknown function (DUF1388); Region: DUF1388; pfam07142 361100011356 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011357 heme-binding site [chemical binding]; other site 361100011358 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011359 heme-binding site [chemical binding]; other site 361100011360 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011361 heme-binding site [chemical binding]; other site 361100011362 heme uptake protein IsdC; Region: IsdC; TIGR03656 361100011363 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 361100011364 heme-binding site [chemical binding]; other site 361100011365 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 361100011366 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 361100011367 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 361100011368 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100011369 RNA binding surface [nucleotide binding]; other site 361100011370 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 361100011371 probable active site [active] 361100011372 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 361100011373 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 361100011374 Walker A/P-loop; other site 361100011375 ATP binding site [chemical binding]; other site 361100011376 Q-loop/lid; other site 361100011377 ABC transporter signature motif; other site 361100011378 Walker B; other site 361100011379 D-loop; other site 361100011380 H-loop/switch region; other site 361100011381 Smr domain; Region: Smr; cl02619 361100011382 hypothetical protein; Provisional; Region: PRK08609 361100011383 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 361100011384 active site 361100011385 primer binding site [nucleotide binding]; other site 361100011386 NTP binding site [chemical binding]; other site 361100011387 metal binding triad [ion binding]; metal-binding site 361100011388 LETM1-like protein; Region: LETM1; pfam07766 361100011389 Colicin V production protein; Region: Colicin_V; cl00567 361100011390 Cell division protein ZapA; Region: ZapA; cl01146 361100011391 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 361100011392 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 361100011393 RNA/DNA hybrid binding site [nucleotide binding]; other site 361100011394 active site 361100011395 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 361100011396 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 361100011397 putative dimer interface [polypeptide binding]; other site 361100011398 putative anticodon binding site; other site 361100011399 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 361100011400 homodimer interface [polypeptide binding]; other site 361100011401 motif 1; other site 361100011402 motif 2; other site 361100011403 active site 361100011404 motif 3; other site 361100011405 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 361100011406 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 361100011407 putative tRNA-binding site [nucleotide binding]; other site 361100011408 B3/4 domain; Region: B3_4; cl11458 361100011409 tRNA synthetase B5 domain; Region: B5; cl08394 361100011410 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 361100011411 dimer interface [polypeptide binding]; other site 361100011412 motif 1; other site 361100011413 motif 3; other site 361100011414 motif 2; other site 361100011415 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 361100011416 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 361100011417 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 361100011418 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 361100011419 dimer interface [polypeptide binding]; other site 361100011420 motif 1; other site 361100011421 active site 361100011422 motif 2; other site 361100011423 motif 3; other site 361100011424 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 361100011425 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 361100011426 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 361100011427 Small, acid-soluble spore protein I; Region: SSPI; cl07940 361100011428 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 361100011429 CAAX protease self-immunity; Region: Abi; cl00558 361100011430 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 361100011431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011432 putative substrate translocation pore; other site 361100011433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011434 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 361100011435 Helix-turn-helix domains; Region: HTH; cl00088 361100011436 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 361100011437 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 361100011438 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 361100011439 oligomer interface [polypeptide binding]; other site 361100011440 active site 361100011441 metal binding site [ion binding]; metal-binding site 361100011442 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 361100011443 dUTPase; Region: dUTPase_2; pfam08761 361100011444 ribosomal protein L20; Region: rpl20; CHL00068 361100011445 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 361100011446 23S rRNA binding site [nucleotide binding]; other site 361100011447 L21 binding site [polypeptide binding]; other site 361100011448 L13 binding site [polypeptide binding]; other site 361100011449 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 361100011450 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 361100011451 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 361100011452 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 361100011453 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 361100011454 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 361100011455 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 361100011456 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 361100011457 active site 361100011458 dimer interface [polypeptide binding]; other site 361100011459 motif 1; other site 361100011460 motif 2; other site 361100011461 motif 3; other site 361100011462 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 361100011463 anticodon binding site; other site 361100011464 YtxC-like family; Region: YtxC; cl08500 361100011465 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 361100011466 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 361100011467 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100011468 Walker A motif; other site 361100011469 ATP binding site [chemical binding]; other site 361100011470 Walker B motif; other site 361100011471 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 361100011472 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 361100011473 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 361100011474 ATP cone domain; Region: ATP-cone; pfam03477 361100011475 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 361100011476 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 361100011477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011478 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 361100011479 dephospho-CoA kinase; Region: TIGR00152 361100011480 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 361100011481 CoA-binding site [chemical binding]; other site 361100011482 ATP-binding [chemical binding]; other site 361100011483 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 361100011484 Domain of unknown function DUF; Region: DUF204; pfam02659 361100011485 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 361100011486 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 361100011487 DNA binding site [nucleotide binding] 361100011488 catalytic residue [active] 361100011489 H2TH interface [polypeptide binding]; other site 361100011490 putative catalytic residues [active] 361100011491 turnover-facilitating residue; other site 361100011492 intercalation triad [nucleotide binding]; other site 361100011493 8OG recognition residue [nucleotide binding]; other site 361100011494 putative reading head residues; other site 361100011495 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 361100011496 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 361100011497 DNA polymerase I; Provisional; Region: PRK05755 361100011498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 361100011499 active site 361100011500 metal binding site 1 [ion binding]; metal-binding site 361100011501 putative 5' ssDNA interaction site; other site 361100011502 metal binding site 3; metal-binding site 361100011503 metal binding site 2 [ion binding]; metal-binding site 361100011504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 361100011505 putative DNA binding site [nucleotide binding]; other site 361100011506 putative metal binding site [ion binding]; other site 361100011507 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 361100011508 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 361100011509 active site 361100011510 DNA binding site [nucleotide binding] 361100011511 catalytic site [active] 361100011512 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 361100011513 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 361100011514 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100011515 putative active site [active] 361100011516 heme pocket [chemical binding]; other site 361100011517 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100011518 dimer interface [polypeptide binding]; other site 361100011519 phosphorylation site [posttranslational modification] 361100011520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100011521 ATP binding site [chemical binding]; other site 361100011522 Mg2+ binding site [ion binding]; other site 361100011523 G-X-G motif; other site 361100011524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100011525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100011526 active site 361100011527 phosphorylation site [posttranslational modification] 361100011528 intermolecular recognition site; other site 361100011529 dimerization interface [polypeptide binding]; other site 361100011530 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100011531 DNA binding site [nucleotide binding] 361100011532 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 361100011533 dimer interaction site [polypeptide binding]; other site 361100011534 substrate-binding tunnel; other site 361100011535 active site 361100011536 catalytic site [active] 361100011537 substrate binding site [chemical binding]; other site 361100011538 malate dehydrogenase; Reviewed; Region: PRK06223 361100011539 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 361100011540 NAD(P) binding site [chemical binding]; other site 361100011541 dimer interface [polypeptide binding]; other site 361100011542 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100011543 substrate binding site [chemical binding]; other site 361100011544 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 361100011545 isocitrate dehydrogenase; Validated; Region: PRK07362 361100011546 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 361100011547 dimer interface [polypeptide binding]; other site 361100011548 Citrate synthase; Region: Citrate_synt; pfam00285 361100011549 active site 361100011550 citrylCoA binding site [chemical binding]; other site 361100011551 oxalacetate/citrate binding site [chemical binding]; other site 361100011552 coenzyme A binding site [chemical binding]; other site 361100011553 catalytic triad [active] 361100011554 Protein of unknown function (DUF441); Region: DUF441; cl01041 361100011555 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 361100011556 Domain of unknown function DUF20; Region: UPF0118; pfam01594 361100011557 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 361100011558 pyruvate kinase; Provisional; Region: PRK06354 361100011559 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 361100011560 domain interfaces; other site 361100011561 active site 361100011562 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 361100011563 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 361100011564 active site 361100011565 ADP/pyrophosphate binding site [chemical binding]; other site 361100011566 dimerization interface [polypeptide binding]; other site 361100011567 allosteric effector site; other site 361100011568 fructose-1,6-bisphosphate binding site; other site 361100011569 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 361100011570 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 361100011571 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 361100011572 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 361100011573 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 361100011574 Transcriptional regulators [Transcription]; Region: FadR; COG2186 361100011575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100011576 DNA-binding site [nucleotide binding]; DNA binding site 361100011577 Malic enzyme, N-terminal domain; Region: malic; pfam00390 361100011578 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 361100011579 putative NAD(P) binding site [chemical binding]; other site 361100011580 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 361100011581 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 361100011582 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 361100011583 generic binding surface II; other site 361100011584 generic binding surface I; other site 361100011585 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 361100011586 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 361100011587 DHH family; Region: DHH; pfam01368 361100011588 DHHA1 domain; Region: DHHA1; pfam02272 361100011589 YtpI-like protein; Region: YtpI; pfam14007 361100011590 Protein of unknown function (DUF3949); Region: DUF3949; pfam13133 361100011591 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 361100011592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100011593 DNA-binding site [nucleotide binding]; DNA binding site 361100011594 DRTGG domain; Region: DRTGG; cl12147 361100011595 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 361100011596 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 361100011597 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100011598 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 361100011599 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 361100011600 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 361100011601 active site 361100011602 Protein of unknown function (DUF3221); Region: DUF3221; pfam11518 361100011603 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 361100011604 Sigma factor regulator N-terminal; Region: Sigma_reg_N; pfam13800 361100011605 Sigma factor regulator C-terminal; Region: Sigma_reg_C; pfam13791 361100011606 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 361100011607 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100011608 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100011609 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100011610 Cupin domain; Region: Cupin_2; cl09118 361100011611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 361100011612 putative transposase OrfB; Reviewed; Region: PHA02517 361100011613 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 361100011614 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 361100011615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011616 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 361100011617 classical (c) SDRs; Region: SDR_c; cd05233 361100011618 NAD(P) binding site [chemical binding]; other site 361100011619 active site 361100011620 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 361100011621 Ligand Binding Site [chemical binding]; other site 361100011622 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100011623 dimerization interface [polypeptide binding]; other site 361100011624 putative DNA binding site [nucleotide binding]; other site 361100011625 putative Zn2+ binding site [ion binding]; other site 361100011626 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100011627 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011628 active site 361100011629 substrate binding site [chemical binding]; other site 361100011630 ATP binding site [chemical binding]; other site 361100011631 activation loop (A-loop); other site 361100011632 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 361100011633 active site 361100011634 zinc binding site [ion binding]; other site 361100011635 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 361100011636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100011637 transposase/IS protein; Provisional; Region: PRK09183 361100011638 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100011639 Walker A motif; other site 361100011640 ATP binding site [chemical binding]; other site 361100011641 Walker B motif; other site 361100011642 DinB superfamily; Region: DinB_2; pfam12867 361100011643 argininosuccinate lyase; Provisional; Region: PRK00855 361100011644 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 361100011645 active sites [active] 361100011646 tetramer interface [polypeptide binding]; other site 361100011647 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 361100011648 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 361100011649 ANP binding site [chemical binding]; other site 361100011650 Substrate Binding Site II [chemical binding]; other site 361100011651 Substrate Binding Site I [chemical binding]; other site 361100011652 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100011653 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100011654 EcsC protein family; Region: EcsC; pfam12787 361100011655 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 361100011656 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 361100011657 nudix motif; other site 361100011658 acetate kinase; Region: ackA; TIGR00016 361100011659 Acetokinase family; Region: Acetate_kinase; cl01029 361100011660 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 361100011661 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100011662 S-adenosylmethionine binding site [chemical binding]; other site 361100011663 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 361100011664 dimer interface [polypeptide binding]; other site 361100011665 catalytic triad [active] 361100011666 peroxidatic and resolving cysteines [active] 361100011667 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 361100011668 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 361100011669 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 361100011670 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 361100011671 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 361100011672 active site 361100011673 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100011674 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 361100011675 dimer interface [polypeptide binding]; other site 361100011676 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 361100011677 AMP-binding enzyme; Region: AMP-binding; cl15778 361100011678 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011679 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100011680 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 361100011681 THUMP domain; Region: THUMP; cl12076 361100011682 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 361100011683 Ligand Binding Site [chemical binding]; other site 361100011684 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100011685 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 361100011686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100011687 catalytic residue [active] 361100011688 septation ring formation regulator EzrA; Provisional; Region: PRK04778 361100011689 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100011690 Helix-turn-helix domains; Region: HTH; cl00088 361100011691 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 361100011692 dimerization interface [polypeptide binding]; other site 361100011693 EamA-like transporter family; Region: EamA; cl01037 361100011694 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100011695 EamA-like transporter family; Region: EamA; cl01037 361100011696 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100011697 Helix-turn-helix domains; Region: HTH; cl00088 361100011698 GAF domain; Region: GAF; cl15785 361100011699 methionine gamma-lyase; Provisional; Region: PRK06767 361100011700 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 361100011701 homodimer interface [polypeptide binding]; other site 361100011702 substrate-cofactor binding pocket; other site 361100011703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100011704 catalytic residue [active] 361100011705 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 361100011706 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 361100011707 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100011708 RNA binding surface [nucleotide binding]; other site 361100011709 Domain of unknown function (DUF4306); Region: DUF4306; pfam14154 361100011710 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 361100011711 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 361100011712 active site 361100011713 HIGH motif; other site 361100011714 dimer interface [polypeptide binding]; other site 361100011715 KMSKS motif; other site 361100011716 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100011717 RNA binding surface [nucleotide binding]; other site 361100011718 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 361100011719 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100011720 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100011721 DNA binding residues [nucleotide binding] 361100011722 acetyl-CoA synthetase; Provisional; Region: PRK04319 361100011723 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 361100011724 AMP-binding enzyme; Region: AMP-binding; cl15778 361100011725 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011726 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100011727 FOG: CBS domain [General function prediction only]; Region: COG0517 361100011728 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 361100011729 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 361100011730 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 361100011731 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 361100011732 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100011733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100011734 active site 361100011735 phosphorylation site [posttranslational modification] 361100011736 intermolecular recognition site; other site 361100011737 dimerization interface [polypeptide binding]; other site 361100011738 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100011739 DNA binding site [nucleotide binding] 361100011740 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100011741 dimerization interface [polypeptide binding]; other site 361100011742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100011743 dimer interface [polypeptide binding]; other site 361100011744 phosphorylation site [posttranslational modification] 361100011745 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100011746 ATP binding site [chemical binding]; other site 361100011747 Mg2+ binding site [ion binding]; other site 361100011748 G-X-G motif; other site 361100011749 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 361100011750 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 361100011751 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 361100011752 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 361100011753 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 361100011754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011755 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 361100011756 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 361100011757 Protein of unknown function (DUF3917); Region: DUF3917; pfam13055 361100011758 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 361100011759 catabolite control protein A; Region: ccpA; TIGR01481 361100011760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100011761 DNA binding site [nucleotide binding] 361100011762 domain linker motif; other site 361100011763 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 361100011764 dimerization interface [polypeptide binding]; other site 361100011765 effector binding site; other site 361100011766 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 361100011767 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 361100011768 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 361100011769 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 361100011770 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 361100011771 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 361100011772 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 361100011773 Coenzyme A binding pocket [chemical binding]; other site 361100011774 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100011775 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 361100011776 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 361100011777 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 361100011778 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 361100011779 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 361100011780 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 361100011781 active site 361100011782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100011783 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 361100011784 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 361100011785 putative tRNA-binding site [nucleotide binding]; other site 361100011786 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 361100011787 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100011788 catalytic residues [active] 361100011789 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 361100011790 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 361100011791 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 361100011792 oligomer interface [polypeptide binding]; other site 361100011793 active site 361100011794 metal binding site [ion binding]; metal-binding site 361100011795 Predicted small secreted protein [Function unknown]; Region: COG5584 361100011796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100011797 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100011798 S-adenosylmethionine binding site [chemical binding]; other site 361100011799 YtzH-like protein; Region: YtzH; pfam14165 361100011800 Phosphotransferase enzyme family; Region: APH; pfam01636 361100011801 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100011802 active site 361100011803 substrate binding site [chemical binding]; other site 361100011804 ATP binding site [chemical binding]; other site 361100011805 pullulanase, type I; Region: pulA_typeI; TIGR02104 361100011806 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 361100011807 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 361100011808 Ca binding site [ion binding]; other site 361100011809 active site 361100011810 catalytic site [active] 361100011811 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 361100011812 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 361100011813 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 361100011814 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 361100011815 dipeptidase PepV; Reviewed; Region: PRK07318 361100011816 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 361100011817 active site 361100011818 metal binding site [ion binding]; metal-binding site 361100011819 Helix-turn-helix domains; Region: HTH; cl00088 361100011820 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 361100011821 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 361100011822 active site 361100011823 uracil binding [chemical binding]; other site 361100011824 stage V sporulation protein B; Region: spore_V_B; TIGR02900 361100011825 MatE; Region: MatE; cl10513 361100011826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100011829 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100011830 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011831 putative substrate translocation pore; other site 361100011832 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011833 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100011834 dimerization interface [polypeptide binding]; other site 361100011835 putative DNA binding site [nucleotide binding]; other site 361100011836 putative Zn2+ binding site [ion binding]; other site 361100011837 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 361100011838 putative hydrophobic ligand binding site [chemical binding]; other site 361100011839 Domain of unknown function (DUF3973); Region: DUF3973; pfam13119 361100011840 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 361100011841 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 361100011842 glucose-1-dehydrogenase; Provisional; Region: PRK08936 361100011843 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 361100011844 NAD binding site [chemical binding]; other site 361100011845 homodimer interface [polypeptide binding]; other site 361100011846 active site 361100011847 Sugar transport protein; Region: Sugar_transport; pfam06800 361100011848 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 361100011849 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 361100011850 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 361100011851 MoaE interaction surface [polypeptide binding]; other site 361100011852 MoeB interaction surface [polypeptide binding]; other site 361100011853 thiocarboxylated glycine; other site 361100011854 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 361100011855 MoaE homodimer interface [polypeptide binding]; other site 361100011856 MoaD interaction [polypeptide binding]; other site 361100011857 active site residues [active] 361100011858 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100011859 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 361100011860 Probable transposase; Region: OrfB_IS605; pfam01385 361100011861 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100011862 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 361100011863 DNA binding residues [nucleotide binding] 361100011864 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 361100011865 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 361100011866 Walker A motif; other site 361100011867 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 361100011868 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 361100011869 dimer interface [polypeptide binding]; other site 361100011870 putative functional site; other site 361100011871 putative MPT binding site; other site 361100011872 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 361100011873 trimer interface [polypeptide binding]; other site 361100011874 dimer interface [polypeptide binding]; other site 361100011875 putative active site [active] 361100011876 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 361100011877 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 361100011878 ATP binding site [chemical binding]; other site 361100011879 substrate interface [chemical binding]; other site 361100011880 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 361100011881 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100011882 FeS/SAM binding site; other site 361100011883 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 361100011884 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 361100011885 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 361100011886 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 361100011887 active site residue [active] 361100011888 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100011889 Vicilin N terminal region; Region: Vicilin_N; pfam04702 361100011890 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100011891 Spore germination protein; Region: Spore_permease; cl15802 361100011892 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100011893 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100011894 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 361100011895 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 361100011896 HIGH motif; other site 361100011897 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 361100011898 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 361100011899 active site 361100011900 KMSKS motif; other site 361100011901 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 361100011902 tRNA binding surface [nucleotide binding]; other site 361100011903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100011904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100011905 putative substrate translocation pore; other site 361100011906 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100011907 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 361100011908 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 361100011909 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 361100011910 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 361100011911 Int/Topo IB signature motif; other site 361100011912 FtsX-like permease family; Region: FtsX; cl15850 361100011913 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100011914 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100011915 Walker A/P-loop; other site 361100011916 ATP binding site [chemical binding]; other site 361100011917 Q-loop/lid; other site 361100011918 ABC transporter signature motif; other site 361100011919 Walker B; other site 361100011920 D-loop; other site 361100011921 H-loop/switch region; other site 361100011922 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100011923 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100011924 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 361100011925 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 361100011926 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100011927 FeS/SAM binding site; other site 361100011928 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100011929 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100011930 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 361100011931 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100011932 Walker A/P-loop; other site 361100011933 ATP binding site [chemical binding]; other site 361100011934 Q-loop/lid; other site 361100011935 ABC transporter signature motif; other site 361100011936 Walker B; other site 361100011937 D-loop; other site 361100011938 H-loop/switch region; other site 361100011939 aspartate racemase; Region: asp_race; TIGR00035 361100011940 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 361100011941 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 361100011942 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 361100011943 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 361100011944 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 361100011945 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 361100011946 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100011947 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100011948 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 361100011949 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 361100011950 trimer interface [polypeptide binding]; other site 361100011951 putative metal binding site [ion binding]; other site 361100011952 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 361100011953 active site 361100011954 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 361100011955 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 361100011956 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 361100011957 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 361100011958 GTP binding site; other site 361100011959 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 361100011960 MPT binding site; other site 361100011961 trimer interface [polypeptide binding]; other site 361100011962 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 361100011963 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100011964 S-adenosylmethionine synthetase; Validated; Region: PRK05250 361100011965 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 361100011966 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 361100011967 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 361100011968 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 361100011969 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 361100011970 active site 361100011971 substrate-binding site [chemical binding]; other site 361100011972 metal-binding site [ion binding] 361100011973 ATP binding site [chemical binding]; other site 361100011974 ATP synthase I chain; Region: ATP_synt_I; cl09170 361100011975 EamA-like transporter family; Region: EamA; cl01037 361100011976 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 361100011977 EamA-like transporter family; Region: EamA; cl01037 361100011978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 361100011979 sensory histidine kinase AtoS; Provisional; Region: PRK11360 361100011980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100011981 ATP binding site [chemical binding]; other site 361100011982 Mg2+ binding site [ion binding]; other site 361100011983 G-X-G motif; other site 361100011984 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100011985 dimer interface [polypeptide binding]; other site 361100011986 phosphorylation site [posttranslational modification] 361100011987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100011988 ATP binding site [chemical binding]; other site 361100011989 Mg2+ binding site [ion binding]; other site 361100011990 G-X-G motif; other site 361100011991 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100011992 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100011993 Sulfatase; Region: Sulfatase; cl10460 361100011994 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 361100011995 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 361100011996 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 361100011997 NMT1-like family; Region: NMT1_2; cl15260 361100011998 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 361100011999 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 361100012000 Walker A/P-loop; other site 361100012001 ATP binding site [chemical binding]; other site 361100012002 Q-loop/lid; other site 361100012003 ABC transporter signature motif; other site 361100012004 Walker B; other site 361100012005 D-loop; other site 361100012006 H-loop/switch region; other site 361100012007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 361100012008 dimer interface [polypeptide binding]; other site 361100012009 conserved gate region; other site 361100012010 putative PBP binding loops; other site 361100012011 ABC-ATPase subunit interface; other site 361100012012 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 361100012013 active site 361100012014 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 361100012015 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100012016 motif II; other site 361100012017 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 361100012018 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 361100012019 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 361100012020 nudix motif; other site 361100012021 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 361100012022 Haemolytic domain; Region: Haemolytic; cl00506 361100012023 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 361100012024 active site clefts [active] 361100012025 zinc binding site [ion binding]; other site 361100012026 dimer interface [polypeptide binding]; other site 361100012027 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 361100012028 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 361100012029 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 361100012030 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 361100012031 S-layer homology domain; Region: SLH; pfam00395 361100012032 S-layer homology domain; Region: SLH; pfam00395 361100012033 S-layer homology domain; Region: SLH; pfam00395 361100012034 Excalibur calcium-binding domain; Region: Excalibur; cl05460 361100012035 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 361100012036 putative active site [active] 361100012037 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100012038 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100012039 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100012040 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100012041 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 361100012042 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 361100012043 Predicted membrane protein [Function unknown]; Region: COG3766 361100012044 PspA/IM30 family; Region: PspA_IM30; pfam04012 361100012045 hypothetical protein; Provisional; Region: PRK06760; cl11698 361100012046 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 361100012047 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 361100012048 G1 box; other site 361100012049 GTP/Mg2+ binding site [chemical binding]; other site 361100012050 Switch I region; other site 361100012051 G2 box; other site 361100012052 G3 box; other site 361100012053 Switch II region; other site 361100012054 G4 box; other site 361100012055 G5 box; other site 361100012056 Nucleoside recognition; Region: Gate; cl00486 361100012057 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 361100012058 Nucleoside recognition; Region: Gate; cl00486 361100012059 FeoA domain; Region: FeoA; cl00838 361100012060 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100012061 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100012062 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100012063 dimerization interface [polypeptide binding]; other site 361100012064 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100012065 dimer interface [polypeptide binding]; other site 361100012066 phosphorylation site [posttranslational modification] 361100012067 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012068 ATP binding site [chemical binding]; other site 361100012069 Mg2+ binding site [ion binding]; other site 361100012070 G-X-G motif; other site 361100012071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012073 active site 361100012074 phosphorylation site [posttranslational modification] 361100012075 intermolecular recognition site; other site 361100012076 dimerization interface [polypeptide binding]; other site 361100012077 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012078 DNA binding site [nucleotide binding] 361100012079 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 361100012080 active site 361100012081 catalytic site [active] 361100012082 Gram positive anchor; Region: Gram_pos_anchor; cl15427 361100012083 S-layer homology domain; Region: SLH; pfam00395 361100012084 S-layer homology domain; Region: SLH; pfam00395 361100012085 S-layer homology domain; Region: SLH; pfam00395 361100012086 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 361100012087 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 361100012088 putative active site [active] 361100012089 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100012090 active site 361100012091 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 361100012092 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 361100012093 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 361100012094 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 361100012095 FtsX-like permease family; Region: FtsX; cl15850 361100012096 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100012097 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100012098 Walker A/P-loop; other site 361100012099 ATP binding site [chemical binding]; other site 361100012100 Q-loop/lid; other site 361100012101 ABC transporter signature motif; other site 361100012102 Walker B; other site 361100012103 D-loop; other site 361100012104 H-loop/switch region; other site 361100012105 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100012106 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100012107 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100012108 S-adenosylmethionine binding site [chemical binding]; other site 361100012109 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 361100012110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100012111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100012112 YolD-like protein; Region: YolD; pfam08863 361100012113 putative transposase OrfB; Reviewed; Region: PHA02517 361100012114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 361100012115 FtsX-like permease family; Region: FtsX; cl15850 361100012116 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100012117 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100012118 Walker A/P-loop; other site 361100012119 ATP binding site [chemical binding]; other site 361100012120 Q-loop/lid; other site 361100012121 ABC transporter signature motif; other site 361100012122 Walker B; other site 361100012123 D-loop; other site 361100012124 H-loop/switch region; other site 361100012125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 361100012126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100012127 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100012128 Predicted integral membrane protein [Function unknown]; Region: COG5658 361100012129 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 361100012130 SdpI/YhfL protein family; Region: SdpI; pfam13630 361100012131 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100012132 dimerization interface [polypeptide binding]; other site 361100012133 putative DNA binding site [nucleotide binding]; other site 361100012134 putative Zn2+ binding site [ion binding]; other site 361100012135 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012137 active site 361100012138 phosphorylation site [posttranslational modification] 361100012139 intermolecular recognition site; other site 361100012140 dimerization interface [polypeptide binding]; other site 361100012141 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012142 DNA binding site [nucleotide binding] 361100012143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100012144 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 361100012145 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012146 ATP binding site [chemical binding]; other site 361100012147 Mg2+ binding site [ion binding]; other site 361100012148 G-X-G motif; other site 361100012149 FtsX-like permease family; Region: FtsX; cl15850 361100012150 FtsX-like permease family; Region: FtsX; cl15850 361100012151 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100012152 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100012153 Walker A/P-loop; other site 361100012154 ATP binding site [chemical binding]; other site 361100012155 Q-loop/lid; other site 361100012156 ABC transporter signature motif; other site 361100012157 Walker B; other site 361100012158 D-loop; other site 361100012159 H-loop/switch region; other site 361100012160 FtsX-like permease family; Region: FtsX; cl15850 361100012161 GntP family permease; Region: GntP_permease; pfam02447 361100012162 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 361100012163 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 361100012164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100012165 DNA-binding site [nucleotide binding]; DNA binding site 361100012166 UTRA domain; Region: UTRA; cl01230 361100012167 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 361100012168 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 361100012169 substrate binding site [chemical binding]; other site 361100012170 ATP binding site [chemical binding]; other site 361100012171 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 361100012172 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 361100012173 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 361100012174 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 361100012175 active site 361100012176 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 361100012177 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 361100012178 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 361100012179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 361100012180 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100012181 dimer interface [polypeptide binding]; other site 361100012182 phosphorylation site [posttranslational modification] 361100012183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012184 ATP binding site [chemical binding]; other site 361100012185 Mg2+ binding site [ion binding]; other site 361100012186 G-X-G motif; other site 361100012187 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012189 active site 361100012190 phosphorylation site [posttranslational modification] 361100012191 intermolecular recognition site; other site 361100012192 dimerization interface [polypeptide binding]; other site 361100012193 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012194 DNA binding site [nucleotide binding] 361100012195 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 361100012196 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 361100012197 active site 361100012198 octamer interface [polypeptide binding]; other site 361100012199 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 361100012200 AMP-binding enzyme; Region: AMP-binding; cl15778 361100012201 AMP-binding enzyme; Region: AMP-binding; cl15778 361100012202 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100012203 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 361100012204 substrate binding site [chemical binding]; other site 361100012205 oxyanion hole (OAH) forming residues; other site 361100012206 trimer interface [polypeptide binding]; other site 361100012207 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 361100012208 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100012209 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 361100012210 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 361100012211 dimer interface [polypeptide binding]; other site 361100012212 tetramer interface [polypeptide binding]; other site 361100012213 PYR/PP interface [polypeptide binding]; other site 361100012214 TPP binding site [chemical binding]; other site 361100012215 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 361100012216 TPP-binding site; other site 361100012217 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 361100012218 chorismate binding enzyme; Region: Chorismate_bind; cl10555 361100012219 UbiA prenyltransferase family; Region: UbiA; cl00337 361100012220 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 361100012221 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100012222 DNA-binding site [nucleotide binding]; DNA binding site 361100012223 RNA-binding motif; other site 361100012224 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 361100012225 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 361100012226 active site flap/lid [active] 361100012227 nucleophilic elbow; other site 361100012228 catalytic triad [active] 361100012229 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 361100012230 homodimer interface [polypeptide binding]; other site 361100012231 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 361100012232 active site pocket [active] 361100012233 glycogen synthase; Provisional; Region: glgA; PRK00654 361100012234 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 361100012235 ADP-binding pocket [chemical binding]; other site 361100012236 homodimer interface [polypeptide binding]; other site 361100012237 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 361100012238 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 361100012239 ligand binding site; other site 361100012240 oligomer interface; other site 361100012241 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 361100012242 dimer interface [polypeptide binding]; other site 361100012243 N-terminal domain interface [polypeptide binding]; other site 361100012244 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 361100012245 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 361100012246 ligand binding site; other site 361100012247 oligomer interface; other site 361100012248 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 361100012249 dimer interface [polypeptide binding]; other site 361100012250 N-terminal domain interface [polypeptide binding]; other site 361100012251 sulfate 1 binding site; other site 361100012252 glycogen branching enzyme; Provisional; Region: PRK12313 361100012253 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 361100012254 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 361100012255 active site 361100012256 catalytic site [active] 361100012257 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 361100012258 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 361100012259 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 361100012260 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 361100012261 putative active site [active] 361100012262 catalytic triad [active] 361100012263 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 361100012264 PA/protease domain interface [polypeptide binding]; other site 361100012265 putative integrin binding motif; other site 361100012266 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 361100012267 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 361100012268 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 361100012269 dockerin binding interface; other site 361100012270 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 361100012271 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 361100012272 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100012273 NAD binding site [chemical binding]; other site 361100012274 dimer interface [polypeptide binding]; other site 361100012275 substrate binding site [chemical binding]; other site 361100012276 potential protein location (conserved hypothetical protein [Bacillus cereus Q1]) that overlaps RNA (23S ribosomal RNA) 361100012277 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 361100012278 MgtC family; Region: MgtC; pfam02308 361100012279 Ion channel; Region: Ion_trans_2; cl11596 361100012280 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 361100012281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100012282 YugN-like family; Region: YugN; pfam08868 361100012283 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 361100012284 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 361100012285 active site 361100012286 dimer interface [polypeptide binding]; other site 361100012287 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 361100012288 dimer interface [polypeptide binding]; other site 361100012289 active site 361100012290 Domain of unknown function (DUF378); Region: DUF378; cl00943 361100012291 general stress protein 13; Validated; Region: PRK08059 361100012292 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 361100012293 RNA binding site [nucleotide binding]; other site 361100012294 hypothetical protein; Validated; Region: PRK07682 361100012295 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100012296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100012297 homodimer interface [polypeptide binding]; other site 361100012298 catalytic residue [active] 361100012299 Helix-turn-helix domains; Region: HTH; cl00088 361100012300 Helix-turn-helix domains; Region: HTH; cl00088 361100012301 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 361100012302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100012303 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100012304 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100012305 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 361100012306 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 361100012307 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 361100012308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100012309 homodimer interface [polypeptide binding]; other site 361100012310 catalytic residue [active] 361100012311 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 361100012312 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 361100012313 E-class dimer interface [polypeptide binding]; other site 361100012314 P-class dimer interface [polypeptide binding]; other site 361100012315 active site 361100012316 Cu2+ binding site [ion binding]; other site 361100012317 Zn2+ binding site [ion binding]; other site 361100012318 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 361100012319 Kinase associated protein B; Region: KapB; pfam08810 361100012320 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 361100012321 active site 361100012322 catalytic site [active] 361100012323 substrate binding site [chemical binding]; other site 361100012324 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 361100012325 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 361100012326 transmembrane helices; other site 361100012327 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 361100012328 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 361100012329 active site 361100012330 glycyl-tRNA synthetase; Provisional; Region: PRK04173 361100012331 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 361100012332 motif 1; other site 361100012333 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 361100012334 active site 361100012335 motif 2; other site 361100012336 motif 3; other site 361100012337 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 361100012338 anticodon binding site; other site 361100012339 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 361100012340 CoenzymeA binding site [chemical binding]; other site 361100012341 subunit interaction site [polypeptide binding]; other site 361100012342 PHB binding site; other site 361100012343 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 361100012344 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 361100012345 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100012346 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 361100012347 active site 361100012348 tetramer interface; other site 361100012349 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 361100012350 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 361100012351 active site 361100012352 substrate binding site [chemical binding]; other site 361100012353 metal binding site [ion binding]; metal-binding site 361100012354 Bacterial membrane-spanning protein N-terminus; Region: YojJ; pfam10372 361100012355 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 361100012356 multifunctional aminopeptidase A; Provisional; Region: PRK00913 361100012357 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 361100012358 interface (dimer of trimers) [polypeptide binding]; other site 361100012359 Substrate-binding/catalytic site; other site 361100012360 Zn-binding sites [ion binding]; other site 361100012361 3D domain; Region: 3D; cl01439 361100012362 Putative membrane protein; Region: YuiB; pfam14068 361100012363 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 361100012364 nudix motif; other site 361100012365 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 361100012366 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100012367 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 361100012368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100012369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100012370 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100012371 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100012372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012373 putative substrate translocation pore; other site 361100012374 Helix-turn-helix domains; Region: HTH; cl00088 361100012375 Protein of unknown function (DUF523); Region: DUF523; cl00733 361100012376 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100012377 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100012378 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100012379 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 361100012380 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 361100012381 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 361100012382 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 361100012383 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 361100012384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100012385 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 361100012386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100012387 Walker A/P-loop; other site 361100012388 ATP binding site [chemical binding]; other site 361100012389 Q-loop/lid; other site 361100012390 ABC transporter signature motif; other site 361100012391 Walker B; other site 361100012392 D-loop; other site 361100012393 H-loop/switch region; other site 361100012394 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 361100012395 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 361100012396 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 361100012397 PhnA protein; Region: PhnA; pfam03831 361100012398 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 361100012399 FOG: WD40-like repeat [Function unknown]; Region: COG1520 361100012400 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 361100012401 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 361100012402 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 361100012403 CAAX protease self-immunity; Region: Abi; cl00558 361100012404 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 361100012405 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 361100012406 NifU-like domain; Region: NifU; cl00484 361100012407 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 361100012408 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 361100012409 tetramer interfaces [polypeptide binding]; other site 361100012410 binuclear metal-binding site [ion binding]; other site 361100012411 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100012412 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100012413 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 361100012414 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100012415 active site 361100012416 motif I; other site 361100012417 motif II; other site 361100012418 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100012419 Predicted transcriptional regulator [Transcription]; Region: COG2345 361100012420 Helix-turn-helix domains; Region: HTH; cl00088 361100012421 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 361100012422 Protein of unknown function DUF86; Region: DUF86; cl01031 361100012423 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 361100012424 putative active site [active] 361100012425 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 361100012426 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 361100012427 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 361100012428 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 361100012429 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 361100012430 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100012431 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 361100012432 DNA binding residues [nucleotide binding] 361100012433 dimer interface [polypeptide binding]; other site 361100012434 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 361100012435 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 361100012436 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 361100012437 catalytic core [active] 361100012438 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 361100012439 putative deacylase active site [active] 361100012440 lipoyl synthase; Provisional; Region: PRK05481 361100012441 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100012442 FeS/SAM binding site; other site 361100012443 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100012444 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 361100012445 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 361100012446 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 361100012447 active site 361100012448 metal binding site [ion binding]; metal-binding site 361100012449 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 361100012450 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 361100012451 FeS assembly protein SufB; Region: sufB; TIGR01980 361100012452 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 361100012453 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 361100012454 trimerization site [polypeptide binding]; other site 361100012455 active site 361100012456 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 361100012457 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 361100012458 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 361100012459 catalytic residue [active] 361100012460 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 361100012461 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 361100012462 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 361100012463 FeS assembly ATPase SufC; Region: sufC; TIGR01978 361100012464 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 361100012465 Walker A/P-loop; other site 361100012466 ATP binding site [chemical binding]; other site 361100012467 Q-loop/lid; other site 361100012468 ABC transporter signature motif; other site 361100012469 Walker B; other site 361100012470 D-loop; other site 361100012471 H-loop/switch region; other site 361100012472 NMT1-like family; Region: NMT1_2; cl15260 361100012473 NMT1-like family; Region: NMT1_2; cl15260 361100012474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 361100012475 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 361100012476 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 361100012477 Walker A/P-loop; other site 361100012478 ATP binding site [chemical binding]; other site 361100012479 Q-loop/lid; other site 361100012480 ABC transporter signature motif; other site 361100012481 Walker B; other site 361100012482 D-loop; other site 361100012483 H-loop/switch region; other site 361100012484 NIL domain; Region: NIL; cl09633 361100012485 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100012486 catalytic residues [active] 361100012487 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 361100012488 putative active site [active] 361100012489 putative metal binding site [ion binding]; other site 361100012490 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 361100012491 lipoyl attachment site [posttranslational modification]; other site 361100012492 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 361100012493 ArsC family; Region: ArsC; pfam03960 361100012494 putative ArsC-like catalytic residues; other site 361100012495 putative TRX-like catalytic residues [active] 361100012496 Protein of unknown function (DUF3937); Region: DUF3937; pfam13073 361100012497 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 361100012498 active site 361100012499 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100012500 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 361100012501 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 361100012502 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 361100012503 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100012504 NAD binding site [chemical binding]; other site 361100012505 dimer interface [polypeptide binding]; other site 361100012506 substrate binding site [chemical binding]; other site 361100012507 Coat F domain; Region: Coat_F; cl15836 361100012508 CAAX protease self-immunity; Region: Abi; cl00558 361100012509 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100012510 non-specific DNA binding site [nucleotide binding]; other site 361100012511 salt bridge; other site 361100012512 sequence-specific DNA binding site [nucleotide binding]; other site 361100012513 Helix-turn-helix domains; Region: HTH; cl00088 361100012514 WHG domain; Region: WHG; pfam13305 361100012515 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 361100012516 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100012517 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 361100012518 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100012519 active site 361100012520 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 361100012521 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 361100012522 dimer interface [polypeptide binding]; other site 361100012523 active site 361100012524 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 361100012525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100012526 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 361100012527 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 361100012528 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 361100012529 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 361100012530 substrate binding site [chemical binding]; other site 361100012531 oxyanion hole (OAH) forming residues; other site 361100012532 YuzL-like protein; Region: YuzL; pfam14115 361100012533 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 361100012534 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100012535 Proline dehydrogenase; Region: Pro_dh; cl03282 361100012536 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 361100012537 Domain of unknown function DUF77; Region: DUF77; cl00307 361100012538 Cache domain; Region: Cache_1; pfam02743 361100012539 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100012540 dimerization interface [polypeptide binding]; other site 361100012541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100012543 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012544 dimer interface [polypeptide binding]; other site 361100012545 putative CheW interface [polypeptide binding]; other site 361100012546 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100012547 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 361100012548 Probable transposase; Region: OrfB_IS605; pfam01385 361100012549 Helix-turn-helix domains; Region: HTH; cl00088 361100012550 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 361100012551 C-terminal domain interface [polypeptide binding]; other site 361100012552 sugar binding site [chemical binding]; other site 361100012553 TQXA domain; Region: TQXA_dom; TIGR03934 361100012554 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100012555 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100012556 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100012557 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100012558 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100012559 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012560 putative substrate translocation pore; other site 361100012561 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 361100012562 Spore germination protein; Region: Spore_permease; cl15802 361100012563 MAEBL; Provisional; Region: PTZ00121 361100012564 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 361100012565 Uncharacterized conserved protein [Function unknown]; Region: COG1284 361100012566 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 361100012567 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 361100012568 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100012569 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100012570 Protein of unknown function (DUF3938); Region: DUF3938; cl07999 361100012571 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 361100012572 active site 361100012573 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100012574 non-specific DNA binding site [nucleotide binding]; other site 361100012575 salt bridge; other site 361100012576 sequence-specific DNA binding site [nucleotide binding]; other site 361100012577 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100012578 Protein of unknown function (DUF3978); Region: DUF3978; pfam13123 361100012579 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 361100012580 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012582 active site 361100012583 phosphorylation site [posttranslational modification] 361100012584 intermolecular recognition site; other site 361100012585 dimerization interface [polypeptide binding]; other site 361100012586 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012587 DNA binding site [nucleotide binding] 361100012588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 361100012589 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100012590 dimer interface [polypeptide binding]; other site 361100012591 phosphorylation site [posttranslational modification] 361100012592 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012593 ATP binding site [chemical binding]; other site 361100012594 Mg2+ binding site [ion binding]; other site 361100012595 G-X-G motif; other site 361100012596 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 361100012597 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 361100012598 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 361100012599 active site 361100012600 HIGH motif; other site 361100012601 KMSKS motif; other site 361100012602 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 361100012603 tRNA binding surface [nucleotide binding]; other site 361100012604 anticodon binding site; other site 361100012605 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100012606 S-adenosylmethionine binding site [chemical binding]; other site 361100012607 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 361100012608 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100012609 dimerization interface [polypeptide binding]; other site 361100012610 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100012611 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012612 dimer interface [polypeptide binding]; other site 361100012613 putative CheW interface [polypeptide binding]; other site 361100012614 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100012615 dimerization interface [polypeptide binding]; other site 361100012616 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012617 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100012618 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012619 dimer interface [polypeptide binding]; other site 361100012620 putative CheW interface [polypeptide binding]; other site 361100012621 Domain of unknown function DUF59; Region: DUF59; cl00941 361100012622 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100012623 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 361100012624 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 361100012625 active site 361100012626 Zn binding site [ion binding]; other site 361100012627 Cupin domain; Region: Cupin_2; cl09118 361100012628 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 361100012629 Helix-turn-helix domains; Region: HTH; cl00088 361100012630 Protein of unknown function (DUF3920); Region: DUF3920; pfam13058 361100012631 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 361100012632 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 361100012633 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 361100012634 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 361100012635 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100012636 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100012637 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 361100012638 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 361100012639 dimerization interface [polypeptide binding]; other site 361100012640 DPS ferroxidase diiron center [ion binding]; other site 361100012641 ion pore; other site 361100012642 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 361100012643 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 361100012644 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 361100012645 Ferritin-like domain; Region: Ferritin; pfam00210 361100012646 ferroxidase diiron center [ion binding]; other site 361100012647 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 361100012648 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100012649 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100012650 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 361100012651 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100012652 Nucleoside recognition; Region: Gate; cl00486 361100012653 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100012654 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100012655 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100012656 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 361100012657 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 361100012658 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 361100012659 NADH(P)-binding; Region: NAD_binding_10; pfam13460 361100012660 NAD binding site [chemical binding]; other site 361100012661 substrate binding site [chemical binding]; other site 361100012662 putative active site [active] 361100012663 Peptidase M60-like family; Region: M60-like; pfam13402 361100012664 Viral enhancin protein; Region: Enhancin; pfam03272 361100012665 TQXA domain; Region: TQXA_dom; TIGR03934 361100012666 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 361100012667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 361100012668 active site 361100012669 catalytic tetrad [active] 361100012670 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 361100012671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012672 putative substrate translocation pore; other site 361100012673 Helix-turn-helix domains; Region: HTH; cl00088 361100012674 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 361100012675 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 361100012676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100012677 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 361100012678 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 361100012679 active site 361100012680 HIGH motif; other site 361100012681 dimer interface [polypeptide binding]; other site 361100012682 KMSKS motif; other site 361100012683 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 361100012684 RNA binding surface [nucleotide binding]; other site 361100012685 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK12436 361100012686 FAD binding domain; Region: FAD_binding_4; pfam01565 361100012687 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 361100012688 Protein of unknown function (DUF3986); Region: DUF3986; pfam13143 361100012689 SET domain; Region: SET; cl02566 361100012690 Domain of unknown function (DUF4077); Region: DUF4077; pfam13295 361100012691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 361100012692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100012693 dimer interface [polypeptide binding]; other site 361100012694 putative CheW interface [polypeptide binding]; other site 361100012695 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 361100012696 putative phosphate binding site [ion binding]; other site 361100012697 CrcB-like protein; Region: CRCB; cl09114 361100012698 CrcB-like protein; Region: CRCB; cl09114 361100012699 Protein of unknown function (DUF3947); Region: DUF3947; pfam13135 361100012700 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 361100012701 H+ Antiporter protein; Region: 2A0121; TIGR00900 361100012702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 361100012703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100012705 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100012706 Walker A/P-loop; other site 361100012707 ATP binding site [chemical binding]; other site 361100012708 Q-loop/lid; other site 361100012709 Chlorosome envelope protein C; Region: Chlorosome_CsmC; pfam11098 361100012710 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100012711 ABC transporter; Region: ABC_tran_2; pfam12848 361100012712 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100012713 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 361100012714 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100012715 Phosphate-starvation-inducible E; Region: PsiE; cl01264 361100012716 Restriction endonuclease; Region: Mrr_cat; cl00516 361100012717 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 361100012718 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100012719 Walker A/P-loop; other site 361100012720 ATP binding site [chemical binding]; other site 361100012721 Q-loop/lid; other site 361100012722 ABC transporter signature motif; other site 361100012723 Walker B; other site 361100012724 D-loop; other site 361100012725 H-loop/switch region; other site 361100012726 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100012727 ABC-ATPase subunit interface; other site 361100012728 dimer interface [polypeptide binding]; other site 361100012729 putative PBP binding regions; other site 361100012730 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100012731 ABC-ATPase subunit interface; other site 361100012732 dimer interface [polypeptide binding]; other site 361100012733 putative PBP binding regions; other site 361100012734 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 361100012735 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 361100012736 putative ligand binding residues [chemical binding]; other site 361100012737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012739 active site 361100012740 phosphorylation site [posttranslational modification] 361100012741 intermolecular recognition site; other site 361100012742 dimerization interface [polypeptide binding]; other site 361100012743 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012744 DNA binding site [nucleotide binding] 361100012745 FtsX-like permease family; Region: FtsX; cl15850 361100012746 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 361100012747 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100012748 Walker A/P-loop; other site 361100012749 ATP binding site [chemical binding]; other site 361100012750 Q-loop/lid; other site 361100012751 ABC transporter signature motif; other site 361100012752 Walker B; other site 361100012753 D-loop; other site 361100012754 H-loop/switch region; other site 361100012755 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100012756 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100012757 dimerization interface [polypeptide binding]; other site 361100012758 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100012759 dimer interface [polypeptide binding]; other site 361100012760 phosphorylation site [posttranslational modification] 361100012761 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012762 ATP binding site [chemical binding]; other site 361100012763 Mg2+ binding site [ion binding]; other site 361100012764 G-X-G motif; other site 361100012765 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100012766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012767 active site 361100012768 phosphorylation site [posttranslational modification] 361100012769 intermolecular recognition site; other site 361100012770 dimerization interface [polypeptide binding]; other site 361100012771 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100012772 DNA binding site [nucleotide binding] 361100012773 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 361100012774 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 361100012775 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100012776 S-adenosylmethionine binding site [chemical binding]; other site 361100012777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100012778 Walker A/P-loop; other site 361100012779 ATP binding site [chemical binding]; other site 361100012780 Protein of unknown function (DUF3888); Region: DUF3888; pfam13027 361100012781 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 361100012782 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 361100012783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 361100012784 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 361100012785 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100012786 dimerization interface [polypeptide binding]; other site 361100012787 putative DNA binding site [nucleotide binding]; other site 361100012788 putative Zn2+ binding site [ion binding]; other site 361100012789 hypothetical protein; Validated; Region: PRK08223 361100012790 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 361100012791 ATP binding site [chemical binding]; other site 361100012792 substrate interface [chemical binding]; other site 361100012793 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 361100012794 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 361100012795 substrate binding site [chemical binding]; other site 361100012796 active site 361100012797 cosubstrate binding site; other site 361100012798 catalytic site [active] 361100012799 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cd08370 361100012800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100012802 putative substrate translocation pore; other site 361100012803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100012804 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 361100012805 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 361100012806 tetramer interface [polypeptide binding]; other site 361100012807 active site 361100012808 Mg2+/Mn2+ binding site [ion binding]; other site 361100012809 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100012810 putative DNA binding site [nucleotide binding]; other site 361100012811 putative Zn2+ binding site [ion binding]; other site 361100012812 Predicted membrane protein [Function unknown]; Region: COG2311 361100012813 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100012814 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100012815 CAAX protease self-immunity; Region: Abi; cl00558 361100012816 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 361100012817 SmpB-tmRNA interface; other site 361100012818 ribonuclease R; Region: RNase_R; TIGR02063 361100012819 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 361100012820 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 361100012821 RNB domain; Region: RNB; pfam00773 361100012822 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 361100012823 RNA binding site [nucleotide binding]; other site 361100012824 Esterase/lipase [General function prediction only]; Region: COG1647 361100012825 Preprotein translocase SecG subunit; Region: SecG; cl09123 361100012826 LrgB-like family; Region: LrgB; cl00596 361100012827 LrgA family; Region: LrgA; cl00608 361100012828 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 361100012829 active site 361100012830 enolase; Provisional; Region: eno; PRK00077 361100012831 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 361100012832 dimer interface [polypeptide binding]; other site 361100012833 metal binding site [ion binding]; metal-binding site 361100012834 substrate binding pocket [chemical binding]; other site 361100012835 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 361100012836 Sulfatase; Region: Sulfatase; cl10460 361100012837 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 361100012838 substrate binding site [chemical binding]; other site 361100012839 dimer interface [polypeptide binding]; other site 361100012840 catalytic triad [active] 361100012841 Phosphoglycerate kinase; Region: PGK; pfam00162 361100012842 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 361100012843 substrate binding site [chemical binding]; other site 361100012844 hinge regions; other site 361100012845 ADP binding site [chemical binding]; other site 361100012846 catalytic site [active] 361100012847 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 361100012848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100012849 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 361100012850 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 361100012851 Predicted transcriptional regulator [Transcription]; Region: COG3388 361100012852 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 361100012853 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 361100012854 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 361100012855 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 361100012856 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 361100012857 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 361100012858 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 361100012859 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100012860 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 361100012861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100012862 Walker A/P-loop; other site 361100012863 ATP binding site [chemical binding]; other site 361100012864 Q-loop/lid; other site 361100012865 ABC transporter signature motif; other site 361100012866 Walker B; other site 361100012867 D-loop; other site 361100012868 H-loop/switch region; other site 361100012869 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 361100012870 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 361100012871 active site 361100012872 catalytic triad [active] 361100012873 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 361100012874 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 361100012875 putative active site [active] 361100012876 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100012877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100012878 Walker A/P-loop; other site 361100012879 ATP binding site [chemical binding]; other site 361100012880 Q-loop/lid; other site 361100012881 ABC transporter signature motif; other site 361100012882 Walker B; other site 361100012883 D-loop; other site 361100012884 H-loop/switch region; other site 361100012885 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100012886 DNA binding residues [nucleotide binding] 361100012887 dimerization interface [polypeptide binding]; other site 361100012888 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 361100012889 substrate-Mg2+ binding site; other site 361100012890 aspartate-rich region 2; other site 361100012891 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 361100012892 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 361100012893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100012894 ATP binding site [chemical binding]; other site 361100012895 Mg2+ binding site [ion binding]; other site 361100012896 G-X-G motif; other site 361100012897 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100012898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100012899 active site 361100012900 phosphorylation site [posttranslational modification] 361100012901 intermolecular recognition site; other site 361100012902 dimerization interface [polypeptide binding]; other site 361100012903 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100012904 DNA binding residues [nucleotide binding] 361100012905 dimerization interface [polypeptide binding]; other site 361100012906 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 361100012907 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 361100012908 active site 361100012909 zinc binding site [ion binding]; other site 361100012910 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012911 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012912 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012913 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012914 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012915 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012916 type 2 lantibiotic, mersacidin/lichenicidin family; Region: lanti_MRSA_kill; TIGR03898 361100012917 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100012918 SpoVA protein; Region: SpoVA; cl04298 361100012919 stage V sporulation protein AD; Provisional; Region: PRK12404 361100012920 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 361100012921 SpoVA protein; Region: SpoVA; cl04298 361100012922 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100012923 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100012924 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100012925 Clp protease; Region: CLP_protease; pfam00574 361100012926 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 361100012927 oligomer interface [polypeptide binding]; other site 361100012928 active site residues [active] 361100012929 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 361100012930 dimerization domain swap beta strand [polypeptide binding]; other site 361100012931 regulatory protein interface [polypeptide binding]; other site 361100012932 active site 361100012933 regulatory phosphorylation site [posttranslational modification]; other site 361100012934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 361100012935 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 361100012936 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 361100012937 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 361100012938 phosphate binding site [ion binding]; other site 361100012939 putative substrate binding pocket [chemical binding]; other site 361100012940 dimer interface [polypeptide binding]; other site 361100012941 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 361100012942 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 361100012943 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 361100012944 putative active site [active] 361100012945 nucleotide binding site [chemical binding]; other site 361100012946 nudix motif; other site 361100012947 putative metal binding site [ion binding]; other site 361100012948 Domain of unknown function (DUF368); Region: DUF368; cl00893 361100012949 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 361100012950 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 361100012951 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100012952 binding surface 361100012953 TPR motif; other site 361100012954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100012955 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 361100012956 binding surface 361100012957 Tetratricopeptide repeat; Region: TPR_16; pfam13432 361100012958 TPR motif; other site 361100012959 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 361100012960 trimer interface [polypeptide binding]; other site 361100012961 active site 361100012962 substrate binding site [chemical binding]; other site 361100012963 CoA binding site [chemical binding]; other site 361100012964 pyrophosphatase PpaX; Provisional; Region: PRK13288 361100012965 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100012966 active site 361100012967 motif I; other site 361100012968 motif II; other site 361100012969 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 361100012970 HPr kinase/phosphorylase; Provisional; Region: PRK05428 361100012971 DRTGG domain; Region: DRTGG; cl12147 361100012972 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 361100012973 Hpr binding site; other site 361100012974 active site 361100012975 homohexamer subunit interaction site [polypeptide binding]; other site 361100012976 Membrane protein of unknown function; Region: DUF360; cl00850 361100012977 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 361100012978 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 361100012979 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 361100012980 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 361100012981 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 361100012982 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 361100012983 excinuclease ABC subunit B; Provisional; Region: PRK05298 361100012984 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100012985 ATP binding site [chemical binding]; other site 361100012986 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100012987 nucleotide binding region [chemical binding]; other site 361100012988 ATP-binding site [chemical binding]; other site 361100012989 Ultra-violet resistance protein B; Region: UvrB; pfam12344 361100012990 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 361100012991 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100012992 DNA binding residues [nucleotide binding] 361100012993 dimer interface [polypeptide binding]; other site 361100012994 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 361100012995 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100012996 non-specific DNA binding site [nucleotide binding]; other site 361100012997 salt bridge; other site 361100012998 sequence-specific DNA binding site [nucleotide binding]; other site 361100012999 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 361100013000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100013001 Helix-turn-helix domains; Region: HTH; cl00088 361100013002 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 361100013003 putative dimerization interface [polypeptide binding]; other site 361100013004 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 361100013005 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100013006 DNA binding residues [nucleotide binding] 361100013007 putative dimer interface [polypeptide binding]; other site 361100013008 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100013009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100013010 H-loop/switch region; other site 361100013011 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 361100013012 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100013013 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100013014 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 361100013015 Walker A/P-loop; other site 361100013016 ATP binding site [chemical binding]; other site 361100013017 Q-loop/lid; other site 361100013018 ABC transporter signature motif; other site 361100013019 Walker B; other site 361100013020 D-loop; other site 361100013021 H-loop/switch region; other site 361100013022 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 361100013023 protein binding site [polypeptide binding]; other site 361100013024 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 361100013025 C-terminal peptidase (prc); Region: prc; TIGR00225 361100013026 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 361100013027 protein binding site [polypeptide binding]; other site 361100013028 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 361100013029 Catalytic dyad [active] 361100013030 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 361100013031 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 361100013032 FtsX-like permease family; Region: FtsX; cl15850 361100013033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100013034 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 361100013035 Walker A/P-loop; other site 361100013036 ATP binding site [chemical binding]; other site 361100013037 Q-loop/lid; other site 361100013038 ABC transporter signature motif; other site 361100013039 Walker B; other site 361100013040 D-loop; other site 361100013041 H-loop/switch region; other site 361100013042 Cytochrome c; Region: Cytochrom_C; cl11414 361100013043 peptide chain release factor 2; Provisional; Region: PRK06746 361100013044 RF-1 domain; Region: RF-1; cl02875 361100013045 RF-1 domain; Region: RF-1; cl02875 361100013046 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 361100013047 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 361100013048 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100013049 nucleotide binding region [chemical binding]; other site 361100013050 ATP-binding site [chemical binding]; other site 361100013051 SEC-C motif; Region: SEC-C; pfam02810 361100013052 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 361100013053 30S subunit binding site; other site 361100013054 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 361100013055 DNA-binding site [nucleotide binding]; DNA binding site 361100013056 RNA-binding motif; other site 361100013057 comF family protein; Region: comF; TIGR00201 361100013058 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100013059 active site 361100013060 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 361100013061 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100013062 ATP binding site [chemical binding]; other site 361100013063 putative Mg++ binding site [ion binding]; other site 361100013064 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100013065 nucleotide binding region [chemical binding]; other site 361100013066 ATP-binding site [chemical binding]; other site 361100013067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 361100013068 NlpC/P60 family; Region: NLPC_P60; cl11438 361100013069 Helix-turn-helix domains; Region: HTH; cl00088 361100013070 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 361100013071 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 361100013072 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 361100013073 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 361100013074 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100013075 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 361100013076 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 361100013077 active site 361100013078 homodimer interface [polypeptide binding]; other site 361100013079 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 361100013080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013081 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 361100013082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013083 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 361100013084 Mg++ binding site [ion binding]; other site 361100013085 putative catalytic motif [active] 361100013086 substrate binding site [chemical binding]; other site 361100013087 potential frameshift: common BLAST hit: gi|42784357|ref|NP_981604.1| polysaccharide deacetylase 361100013088 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 361100013089 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 361100013090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100013091 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 361100013092 Walker A motif; other site 361100013093 ATP binding site [chemical binding]; other site 361100013094 Walker B motif; other site 361100013095 arginine finger; other site 361100013096 Transcriptional antiterminator [Transcription]; Region: COG3933 361100013097 PRD domain; Region: PRD; cl15445 361100013098 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 361100013099 active pocket/dimerization site; other site 361100013100 active site 361100013101 phosphorylation site [posttranslational modification] 361100013102 PRD domain; Region: PRD; cl15445 361100013103 CHRD domain; Region: CHRD; cl06473 361100013104 Chromate transporter; Region: Chromate_transp; pfam02417 361100013105 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 361100013106 Chromate transporter; Region: Chromate_transp; pfam02417 361100013107 YdjC-like protein; Region: YdjC; cl01344 361100013108 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 361100013109 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 361100013110 NAD binding site [chemical binding]; other site 361100013111 sugar binding site [chemical binding]; other site 361100013112 divalent metal binding site [ion binding]; other site 361100013113 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100013114 dimer interface [polypeptide binding]; other site 361100013115 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 361100013116 active site 361100013117 methionine cluster; other site 361100013118 phosphorylation site [posttranslational modification] 361100013119 metal binding site [ion binding]; metal-binding site 361100013120 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100013121 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 361100013122 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 361100013123 active site 361100013124 P-loop; other site 361100013125 phosphorylation site [posttranslational modification] 361100013126 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100013127 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 361100013128 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 361100013129 LytTr DNA-binding domain; Region: LytTR; cl04498 361100013130 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 361100013131 methionine cluster; other site 361100013132 active site 361100013133 phosphorylation site [posttranslational modification] 361100013134 metal binding site [ion binding]; metal-binding site 361100013135 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 361100013136 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100013137 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 361100013138 active site 361100013139 P-loop; other site 361100013140 phosphorylation site [posttranslational modification] 361100013141 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 361100013142 Acyltransferase family; Region: Acyl_transf_3; pfam01757 361100013143 OpgC protein; Region: OpgC_C; cl00792 361100013144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 361100013145 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 361100013146 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 361100013147 active site 361100013148 catalytic site [active] 361100013149 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 361100013150 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013151 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013152 Gram positive anchor; Region: Gram_pos_anchor; cl15427 361100013153 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100013154 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 361100013155 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100013156 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100013157 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100013158 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013159 Predicted membrane protein [Function unknown]; Region: COG1511 361100013160 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 361100013161 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 361100013162 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 361100013163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 361100013164 Helix-turn-helix domains; Region: HTH; cl00088 361100013165 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 361100013166 putative dimerization interface [polypeptide binding]; other site 361100013167 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 361100013168 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 361100013169 arsenical pump membrane protein; Provisional; Region: PRK15445 361100013170 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 361100013171 transmembrane helices; other site 361100013172 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 361100013173 ThiC-associated domain; Region: ThiC-associated; pfam13667 361100013174 ThiC family; Region: ThiC; cl08031 361100013175 L-lactate permease; Region: Lactate_perm; cl00701 361100013176 glycolate transporter; Provisional; Region: PRK09695 361100013177 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 361100013178 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 361100013179 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 361100013180 Sulfatase; Region: Sulfatase; cl10460 361100013181 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 361100013182 homodimer interface [polypeptide binding]; other site 361100013183 substrate-cofactor binding pocket; other site 361100013184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100013185 catalytic residue [active] 361100013186 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 361100013187 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013188 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013189 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013190 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013191 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013192 NlpC/P60 family; Region: NLPC_P60; cl11438 361100013193 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 361100013194 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 361100013195 Nucleoside recognition; Region: Gate; cl00486 361100013196 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 361100013197 rod shape-determining protein MreC; Provisional; Region: PRK13922 361100013198 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 361100013199 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 361100013200 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 361100013201 DXD motif; other site 361100013202 BCCT family transporter; Region: BCCT; cl00569 361100013203 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013204 Bacterial SH3 domain; Region: SH3_3; cl02551 361100013205 3D domain; Region: 3D; cl01439 361100013206 Protein of unknown function (DUF3910); Region: DUF3910; pfam13049 361100013207 Predicted membrane protein [Function unknown]; Region: COG4640 361100013208 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 361100013209 Double zinc ribbon; Region: DZR; pfam12773 361100013210 Double zinc ribbon; Region: DZR; pfam12773 361100013211 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 361100013212 SNF2 Helicase protein; Region: DUF3670; pfam12419 361100013213 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 361100013214 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 361100013215 ATP binding site [chemical binding]; other site 361100013216 putative Mg++ binding site [ion binding]; other site 361100013217 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100013218 nucleotide binding region [chemical binding]; other site 361100013219 ATP-binding site [chemical binding]; other site 361100013220 VanZ like family; Region: VanZ; cl01971 361100013221 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 361100013222 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 361100013223 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 361100013224 ComK protein; Region: ComK; cl11560 361100013225 RNA polymerase factor sigma-70; Validated; Region: PRK06759 361100013226 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100013227 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100013228 DNA binding residues [nucleotide binding] 361100013229 Yip1 domain; Region: Yip1; cl12048 361100013230 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 361100013231 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 361100013232 FtsX-like permease family; Region: FtsX; cl15850 361100013233 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 361100013234 Walker A/P-loop; other site 361100013235 ATP binding site [chemical binding]; other site 361100013236 ABC transporter; Region: ABC_tran; pfam00005 361100013237 Q-loop/lid; other site 361100013238 ABC transporter signature motif; other site 361100013239 Walker B; other site 361100013240 D-loop; other site 361100013241 H-loop/switch region; other site 361100013242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 361100013243 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 361100013244 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 361100013245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100013246 putative substrate translocation pore; other site 361100013247 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 361100013248 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 361100013249 Protein of unknown function (DUF3919); Region: DUF3919; pfam13057 361100013250 sensory histidine kinase CreC; Provisional; Region: PRK11100 361100013251 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100013252 dimerization interface [polypeptide binding]; other site 361100013253 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100013254 dimer interface [polypeptide binding]; other site 361100013255 phosphorylation site [posttranslational modification] 361100013256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100013257 ATP binding site [chemical binding]; other site 361100013258 Mg2+ binding site [ion binding]; other site 361100013259 G-X-G motif; other site 361100013260 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100013261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013262 active site 361100013263 phosphorylation site [posttranslational modification] 361100013264 intermolecular recognition site; other site 361100013265 dimerization interface [polypeptide binding]; other site 361100013266 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100013267 DNA binding site [nucleotide binding] 361100013268 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 361100013269 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 361100013270 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 361100013271 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 361100013272 active site 361100013273 P-loop; other site 361100013274 phosphorylation site [posttranslational modification] 361100013275 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100013276 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 361100013277 active site 361100013278 phosphorylation site [posttranslational modification] 361100013279 Helix-turn-helix domains; Region: HTH; cl00088 361100013280 Helix-turn-helix domains; Region: HTH; cl00088 361100013281 PRD domain; Region: PRD; cl15445 361100013282 PRD domain; Region: PRD; cl15445 361100013283 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 361100013284 active site 361100013285 P-loop; other site 361100013286 phosphorylation site [posttranslational modification] 361100013287 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 361100013288 active site 361100013289 phosphorylation site [posttranslational modification] 361100013290 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 361100013291 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 361100013292 active site 361100013293 substrate binding site [chemical binding]; other site 361100013294 metal binding site [ion binding]; metal-binding site 361100013295 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 361100013296 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 361100013297 NAD binding site [chemical binding]; other site 361100013298 homodimer interface [polypeptide binding]; other site 361100013299 active site 361100013300 substrate binding site [chemical binding]; other site 361100013301 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 361100013302 UDP-glucose 4-epimerase; Region: PLN02240 361100013303 NAD binding site [chemical binding]; other site 361100013304 homodimer interface [polypeptide binding]; other site 361100013305 active site 361100013306 substrate binding site [chemical binding]; other site 361100013307 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 361100013308 active site 361100013309 metal-binding site 361100013310 EamA-like transporter family; Region: EamA; cl01037 361100013311 EamA-like transporter family; Region: EamA; cl01037 361100013312 Helix-turn-helix domains; Region: HTH; cl00088 361100013313 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100013314 active site 361100013315 Phosphotransferase enzyme family; Region: APH; pfam01636 361100013316 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 361100013317 active site 361100013318 substrate binding site [chemical binding]; other site 361100013319 ATP binding site [chemical binding]; other site 361100013320 dimer interface [polypeptide binding]; other site 361100013321 MatE; Region: MatE; cl10513 361100013322 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 361100013323 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 361100013324 LicD family; Region: LicD; cl01378 361100013325 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 361100013326 catalytic triad [active] 361100013327 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 361100013328 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 361100013329 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 361100013330 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 361100013331 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 361100013332 active site 361100013333 Cupin domain; Region: Cupin_2; cl09118 361100013334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 361100013335 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 361100013336 putative ADP-binding pocket [chemical binding]; other site 361100013337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 361100013338 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 361100013339 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 361100013340 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 361100013341 active site 361100013342 Bacterial sugar transferase; Region: Bac_transf; cl00939 361100013343 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 361100013344 active site 361100013345 tetramer interface; other site 361100013346 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 361100013347 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 361100013348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100013349 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 361100013350 Chain length determinant protein; Region: Wzz; cl15801 361100013351 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 361100013352 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100013353 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 361100013354 rod shape-determining protein Mbl; Provisional; Region: PRK13928 361100013355 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 361100013356 ATP binding site [chemical binding]; other site 361100013357 profilin binding site; other site 361100013358 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100013359 Peptidase family M23; Region: Peptidase_M23; pfam01551 361100013360 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100013361 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100013362 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100013363 Walker A/P-loop; other site 361100013364 ATP binding site [chemical binding]; other site 361100013365 Q-loop/lid; other site 361100013366 ABC transporter signature motif; other site 361100013367 Walker B; other site 361100013368 D-loop; other site 361100013369 H-loop/switch region; other site 361100013370 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 361100013371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100013372 Walker A/P-loop; other site 361100013373 ATP binding site [chemical binding]; other site 361100013374 Q-loop/lid; other site 361100013375 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 361100013376 ABC transporter signature motif; other site 361100013377 Walker B; other site 361100013378 D-loop; other site 361100013379 H-loop/switch region; other site 361100013380 LytTr DNA-binding domain; Region: LytTR; cl04498 361100013381 stage II sporulation protein D; Region: spore_II_D; TIGR02870 361100013382 Stage II sporulation protein; Region: SpoIID; pfam08486 361100013383 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 361100013384 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 361100013385 hinge; other site 361100013386 active site 361100013387 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 361100013388 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 361100013389 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 361100013390 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 361100013391 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 361100013392 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 361100013393 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 361100013394 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 361100013395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 361100013396 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 361100013397 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 361100013398 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 361100013399 4Fe-4S binding domain; Region: Fer4; cl02805 361100013400 4Fe-4S binding domain; Region: Fer4; cl02805 361100013401 NADH dehydrogenase; Region: NADHdh; cl00469 361100013402 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 361100013403 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 361100013404 NADH dehydrogenase subunit C; Validated; Region: PRK07735 361100013405 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 361100013406 NADH dehydrogenase subunit B; Validated; Region: PRK06411 361100013407 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 361100013408 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 361100013409 PAS domain S-box; Region: sensory_box; TIGR00229 361100013410 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100013411 putative active site [active] 361100013412 heme pocket [chemical binding]; other site 361100013413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100013414 metal binding site [ion binding]; metal-binding site 361100013415 active site 361100013416 I-site; other site 361100013417 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100013418 Protein of unknown function (DUF975); Region: DUF975; cl10504 361100013419 Protein of unknown function (DUF975); Region: DUF975; cl10504 361100013420 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 361100013421 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 361100013422 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 361100013423 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 361100013424 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 361100013425 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 361100013426 alpha subunit interaction interface [polypeptide binding]; other site 361100013427 Walker A motif; other site 361100013428 ATP binding site [chemical binding]; other site 361100013429 Walker B motif; other site 361100013430 inhibitor binding site; inhibition site 361100013431 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 361100013432 ATP synthase; Region: ATP-synt; cl00365 361100013433 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 361100013434 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 361100013435 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 361100013436 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 361100013437 beta subunit interaction interface [polypeptide binding]; other site 361100013438 Walker A motif; other site 361100013439 ATP binding site [chemical binding]; other site 361100013440 Walker B motif; other site 361100013441 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 361100013442 Plant ATP synthase F0; Region: YMF19; cl07975 361100013443 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 361100013444 Plant ATP synthase F0; Region: YMF19; cl07975 361100013445 ATP synthase subunit C; Region: ATP-synt_C; cl00466 361100013446 ATP synthase A chain; Region: ATP-synt_A; cl00413 361100013447 ATP synthase I chain; Region: ATP_synt_I; cl09170 361100013448 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 361100013449 Protein of unknown function (DUF4024); Region: DUF4024; pfam13216 361100013450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 361100013451 active site 361100013452 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 361100013453 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 361100013454 dimer interface [polypeptide binding]; other site 361100013455 active site 361100013456 glycine-pyridoxal phosphate binding site [chemical binding]; other site 361100013457 folate binding site [chemical binding]; other site 361100013458 Protein of unknown function (DUF436); Region: DUF436; cl01860 361100013459 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 361100013460 Low molecular weight phosphatase family; Region: LMWPc; cd00115 361100013461 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 361100013462 active site 361100013463 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 361100013464 HPr interaction site; other site 361100013465 glycerol kinase (GK) interaction site [polypeptide binding]; other site 361100013466 active site 361100013467 phosphorylation site [posttranslational modification] 361100013468 DoxX; Region: DoxX; cl00976 361100013469 Flavin Reductases; Region: FlaRed; cl00801 361100013470 Protein of unknown function (DUF3935); Region: DUF3935; pfam13071 361100013471 Domain of unknown function DUF; Region: DUF204; pfam02659 361100013472 Domain of unknown function DUF; Region: DUF204; pfam02659 361100013473 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 361100013474 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 361100013475 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100013476 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 361100013477 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 361100013478 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100013479 S-adenosylmethionine binding site [chemical binding]; other site 361100013480 peptide chain release factor 1; Validated; Region: prfA; PRK00591 361100013481 RF-1 domain; Region: RF-1; cl02875 361100013482 RF-1 domain; Region: RF-1; cl02875 361100013483 thymidine kinase; Provisional; Region: PRK04296 361100013484 LabA_like proteins; Region: LabA_like/DUF88; cl10034 361100013485 putative metal binding site [ion binding]; other site 361100013486 transcription termination factor Rho; Provisional; Region: rho; PRK09376 361100013487 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 361100013488 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 361100013489 RNA binding site [nucleotide binding]; other site 361100013490 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 361100013491 multimer interface [polypeptide binding]; other site 361100013492 Walker A motif; other site 361100013493 ATP binding site [chemical binding]; other site 361100013494 Walker B motif; other site 361100013495 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 361100013496 putative active site [active] 361100013497 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 361100013498 active site 361100013499 hinge; other site 361100013500 hypothetical protein; Provisional; Region: PRK08185 361100013501 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 361100013502 intersubunit interface [polypeptide binding]; other site 361100013503 active site 361100013504 zinc binding site [ion binding]; other site 361100013505 Na+ binding site [ion binding]; other site 361100013506 Response regulator receiver domain; Region: Response_reg; pfam00072 361100013507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013508 active site 361100013509 phosphorylation site [posttranslational modification] 361100013510 intermolecular recognition site; other site 361100013511 dimerization interface [polypeptide binding]; other site 361100013512 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 361100013513 CTP synthetase; Validated; Region: pyrG; PRK05380 361100013514 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 361100013515 Catalytic site [active] 361100013516 active site 361100013517 UTP binding site [chemical binding]; other site 361100013518 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 361100013519 active site 361100013520 putative oxyanion hole; other site 361100013521 catalytic triad [active] 361100013522 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 361100013523 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100013524 Helix-turn-helix domains; Region: HTH; cl00088 361100013525 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100013526 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 361100013527 FAD binding site [chemical binding]; other site 361100013528 homotetramer interface [polypeptide binding]; other site 361100013529 substrate binding pocket [chemical binding]; other site 361100013530 catalytic base [active] 361100013531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 361100013532 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 361100013533 FAD binding site [chemical binding]; other site 361100013534 homotetramer interface [polypeptide binding]; other site 361100013535 substrate binding pocket [chemical binding]; other site 361100013536 catalytic base [active] 361100013537 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 361100013538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013539 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 361100013540 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 361100013541 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 361100013542 dimer interface [polypeptide binding]; other site 361100013543 active site 361100013544 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 361100013545 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 361100013546 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 361100013547 Cysteine-rich domain; Region: CCG; pfam02754 361100013548 Cysteine-rich domain; Region: CCG; pfam02754 361100013549 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100013550 PLD-like domain; Region: PLDc_2; pfam13091 361100013551 putative active site [active] 361100013552 catalytic site [active] 361100013553 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100013554 PLD-like domain; Region: PLDc_2; pfam13091 361100013555 putative active site [active] 361100013556 catalytic site [active] 361100013557 UV-endonuclease UvdE; Region: UvdE; cl10036 361100013558 Domain of unknown function (DUF4084); Region: DUF4084; pfam13321 361100013559 PAS domain S-box; Region: sensory_box; TIGR00229 361100013560 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100013561 putative active site [active] 361100013562 heme pocket [chemical binding]; other site 361100013563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100013564 metal binding site [ion binding]; metal-binding site 361100013565 active site 361100013566 I-site; other site 361100013567 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 361100013568 Bacillus PapR protein; Region: Bacillus_PapR; pfam05968 361100013569 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100013570 non-specific DNA binding site [nucleotide binding]; other site 361100013571 salt bridge; other site 361100013572 sequence-specific DNA binding site [nucleotide binding]; other site 361100013573 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100013574 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100013575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013576 active site 361100013577 phosphorylation site [posttranslational modification] 361100013578 intermolecular recognition site; other site 361100013579 dimerization interface [polypeptide binding]; other site 361100013580 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100013581 DNA binding residues [nucleotide binding] 361100013582 dimerization interface [polypeptide binding]; other site 361100013583 OpgC protein; Region: OpgC_C; cl00792 361100013584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 361100013585 Histidine kinase; Region: HisKA_3; pfam07730 361100013586 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 361100013587 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100013588 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100013589 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100013590 Walker A/P-loop; other site 361100013591 ATP binding site [chemical binding]; other site 361100013592 Q-loop/lid; other site 361100013593 ABC transporter signature motif; other site 361100013594 Walker B; other site 361100013595 D-loop; other site 361100013596 H-loop/switch region; other site 361100013597 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 361100013598 active site 361100013599 Sporulation related domain; Region: SPOR; cl10051 361100013600 Collagen binding domain; Region: Collagen_bind; pfam05737 361100013601 Collagen binding domain; Region: Collagen_bind; pfam05737 361100013602 Collagen binding domain; Region: Collagen_bind; pfam05737 361100013603 Collagen binding domain; Region: Collagen_bind; pfam05737 361100013604 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013605 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013606 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013607 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013608 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013609 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013610 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013611 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013612 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013613 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013614 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013615 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013616 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013617 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013618 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013619 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013620 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013621 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013622 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013623 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013624 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013625 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013626 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 361100013627 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 361100013628 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cd00538 361100013629 PA/protease or protease-like domain interface [polypeptide binding]; other site 361100013630 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 361100013631 metal binding site [ion binding]; metal-binding site 361100013632 RNA polymerase sigma factor; Provisional; Region: PRK12522 361100013633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 361100013634 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100013635 DNA binding residues [nucleotide binding] 361100013636 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 361100013637 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 361100013638 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 361100013639 active site 361100013640 HIGH motif; other site 361100013641 KMSK motif region; other site 361100013642 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 361100013643 tRNA binding surface [nucleotide binding]; other site 361100013644 anticodon binding site; other site 361100013645 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 361100013646 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 361100013647 putative dimer interface [polypeptide binding]; other site 361100013648 catalytic triad [active] 361100013649 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 361100013650 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 361100013651 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 361100013652 Arginase family; Region: Arginase; cl00306 361100013653 spermidine synthase; Provisional; Region: PRK00811 361100013654 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 361100013655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100013656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 361100013657 putative substrate translocation pore; other site 361100013658 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 361100013659 Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator; Region: HTH_YfmP; cd04774 361100013660 DNA binding residues [nucleotide binding] 361100013661 putative dimer interface [polypeptide binding]; other site 361100013662 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 361100013663 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 361100013664 active site 361100013665 catalytic site [active] 361100013666 metal binding site [ion binding]; metal-binding site 361100013667 dimer interface [polypeptide binding]; other site 361100013668 Transglycosylase; Region: Transgly; cl07896 361100013669 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 361100013670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100013671 YwhD family; Region: YwhD; pfam08741 361100013672 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 361100013673 active site 361100013674 putative substrate binding region [chemical binding]; other site 361100013675 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 361100013676 active site 1 [active] 361100013677 dimer interface [polypeptide binding]; other site 361100013678 hexamer interface [polypeptide binding]; other site 361100013679 active site 2 [active] 361100013680 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 361100013681 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 361100013682 Zn2+ binding site [ion binding]; other site 361100013683 Mg2+ binding site [ion binding]; other site 361100013684 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 361100013685 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 361100013686 intersubunit interface [polypeptide binding]; other site 361100013687 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 361100013688 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 361100013689 Walker A/P-loop; other site 361100013690 ATP binding site [chemical binding]; other site 361100013691 Q-loop/lid; other site 361100013692 ABC transporter signature motif; other site 361100013693 Walker B; other site 361100013694 D-loop; other site 361100013695 H-loop/switch region; other site 361100013696 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100013697 ABC-ATPase subunit interface; other site 361100013698 dimer interface [polypeptide binding]; other site 361100013699 putative PBP binding regions; other site 361100013700 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 361100013701 ABC-ATPase subunit interface; other site 361100013702 dimer interface [polypeptide binding]; other site 361100013703 putative PBP binding regions; other site 361100013704 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 361100013705 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 361100013706 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 361100013707 hypothetical protein; Provisional; Region: PRK06760; cl11698 361100013708 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 361100013709 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 361100013710 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 361100013711 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 361100013712 Chlorite dismutase; Region: Chlor_dismutase; cl01280 361100013713 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 361100013714 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100013715 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 361100013716 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 361100013717 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; cl09881 361100013718 Protein of unknown function (DUF423); Region: DUF423; cl01008 361100013719 Ion channel; Region: Ion_trans_2; cl11596 361100013720 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 361100013721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013722 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 361100013723 putative uracil/xanthine transporter; Provisional; Region: PRK11412 361100013724 potential frameshift: common BLAST hit: gi|42784570|ref|NP_981817.1| HAD superfamily hydrolase 361100013725 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100013726 motif II; other site 361100013727 sugar phosphate phosphatase; Provisional; Region: PRK10513 361100013728 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100013729 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 361100013730 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 361100013731 ligand binding site [chemical binding]; other site 361100013732 active site 361100013733 UGI interface [polypeptide binding]; other site 361100013734 catalytic site [active] 361100013735 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 361100013736 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 361100013737 ABC-2 type transporter; Region: ABC2_membrane; cl11417 361100013738 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100013739 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 361100013740 Walker A/P-loop; other site 361100013741 ATP binding site [chemical binding]; other site 361100013742 Q-loop/lid; other site 361100013743 ABC transporter signature motif; other site 361100013744 Walker B; other site 361100013745 D-loop; other site 361100013746 H-loop/switch region; other site 361100013747 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 361100013748 active site 361100013749 catalytic triad [active] 361100013750 oxyanion hole [active] 361100013751 Transcriptional regulators [Transcription]; Region: PurR; COG1609 361100013752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 361100013753 DNA binding site [nucleotide binding] 361100013754 domain linker motif; other site 361100013755 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 361100013756 putative dimerization interface [polypeptide binding]; other site 361100013757 putative ligand binding site [chemical binding]; other site 361100013758 Predicted membrane protein [Function unknown]; Region: COG2364 361100013759 homoserine dehydrogenase; Provisional; Region: PRK06349 361100013760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013761 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 361100013762 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 361100013763 Homoserine O-succinyltransferase; Region: HTS; pfam04204 361100013764 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 361100013765 proposed active site lysine [active] 361100013766 conserved cys residue [active] 361100013767 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06702 361100013768 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 361100013769 homodimer interface [polypeptide binding]; other site 361100013770 substrate-cofactor binding pocket; other site 361100013771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 361100013772 catalytic residue [active] 361100013773 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 361100013774 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100013775 active site 361100013776 motif I; other site 361100013777 motif II; other site 361100013778 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 361100013779 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 361100013780 ligand binding site [chemical binding]; other site 361100013781 flexible hinge region; other site 361100013782 Helix-turn-helix domains; Region: HTH; cl00088 361100013783 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 361100013784 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 361100013785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013786 active site 361100013787 phosphorylation site [posttranslational modification] 361100013788 intermolecular recognition site; other site 361100013789 dimerization interface [polypeptide binding]; other site 361100013790 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 361100013791 DNA binding residues [nucleotide binding] 361100013792 dimerization interface [polypeptide binding]; other site 361100013793 GAF domain; Region: GAF; cl15785 361100013794 GAF domain; Region: GAF_2; pfam13185 361100013795 GAF domain; Region: GAF; cl15785 361100013796 GAF domain; Region: GAF_2; pfam13185 361100013797 Histidine kinase; Region: HisKA_3; pfam07730 361100013798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 361100013799 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 361100013800 dimer interface [polypeptide binding]; other site 361100013801 substrate binding site [chemical binding]; other site 361100013802 ATP binding site [chemical binding]; other site 361100013803 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100013804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 361100013805 metal binding site [ion binding]; metal-binding site 361100013806 active site 361100013807 I-site; other site 361100013808 Protein of unknown function (DUF466); Region: DUF466; cl01082 361100013809 carbon starvation protein A; Provisional; Region: PRK15015 361100013810 Carbon starvation protein CstA; Region: CstA; pfam02554 361100013811 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 361100013812 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 361100013813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013814 active site 361100013815 phosphorylation site [posttranslational modification] 361100013816 intermolecular recognition site; other site 361100013817 dimerization interface [polypeptide binding]; other site 361100013818 LytTr DNA-binding domain; Region: LytTR; cl04498 361100013819 benzoate transport; Region: 2A0115; TIGR00895 361100013820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100013821 putative substrate translocation pore; other site 361100013822 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 361100013823 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 361100013824 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 361100013825 Predicted membrane protein [Function unknown]; Region: COG2860 361100013826 UPF0126 domain; Region: UPF0126; pfam03458 361100013827 UPF0126 domain; Region: UPF0126; pfam03458 361100013828 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 361100013829 heme-binding site [chemical binding]; other site 361100013830 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100013831 dimer interface [polypeptide binding]; other site 361100013832 putative CheW interface [polypeptide binding]; other site 361100013833 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 361100013834 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 361100013835 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 361100013836 Ligand binding site; other site 361100013837 Putative Catalytic site; other site 361100013838 DXD motif; other site 361100013839 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 361100013840 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 361100013841 active site 361100013842 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 361100013843 MatE; Region: MatE; cl10513 361100013844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013845 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 361100013846 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100013847 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100013848 ABC transporter; Region: ABC_tran_2; pfam12848 361100013849 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 361100013850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100013851 transposase/IS protein; Provisional; Region: PRK09183 361100013852 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100013853 Walker A motif; other site 361100013854 ATP binding site [chemical binding]; other site 361100013855 Walker B motif; other site 361100013856 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100013857 Helix-turn-helix domains; Region: HTH; cl00088 361100013858 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 361100013859 Protein export membrane protein; Region: SecD_SecF; cl14618 361100013860 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 361100013861 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 361100013862 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 361100013863 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 361100013864 LrgB-like family; Region: LrgB; cl00596 361100013865 LrgA family; Region: LrgA; cl00608 361100013866 two-component response regulator; Provisional; Region: PRK14084 361100013867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013868 active site 361100013869 phosphorylation site [posttranslational modification] 361100013870 intermolecular recognition site; other site 361100013871 dimerization interface [polypeptide binding]; other site 361100013872 LytTr DNA-binding domain; Region: LytTR; cl04498 361100013873 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 361100013874 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 361100013875 GAF domain; Region: GAF; cl15785 361100013876 Histidine kinase; Region: His_kinase; pfam06580 361100013877 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100013878 ATP binding site [chemical binding]; other site 361100013879 Mg2+ binding site [ion binding]; other site 361100013880 G-X-G motif; other site 361100013881 potential frameshift: common BLAST hit: gi|52145250|ref|YP_086707.1| major facilitator transporter 361100013882 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100013883 putative substrate translocation pore; other site 361100013884 Organic Anion Transporter Polypeptide (OATP) family; Region: OATP; pfam03137 361100013885 benzoate transport; Region: 2A0115; TIGR00895 361100013886 BCCT family transporter; Region: BCCT; cl00569 361100013887 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 361100013888 active site 361100013889 dimer interface [polypeptide binding]; other site 361100013890 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 361100013891 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 361100013892 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 361100013893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 361100013894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100013895 NAD(P) binding site [chemical binding]; other site 361100013896 active site 361100013897 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 361100013898 TM1410 hypothetical-related protein; Region: DUF297; cl00997 361100013899 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 361100013900 GAF domain; Region: GAF; cl15785 361100013901 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100013902 binding surface 361100013903 TPR motif; other site 361100013904 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 361100013905 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG4878; cd10924 361100013906 NodB motif; other site 361100013907 putative active site [active] 361100013908 putative catalytic site [active] 361100013909 putative Zn binding site [ion binding]; other site 361100013910 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 361100013911 Predicted membrane protein [Function unknown]; Region: COG4267 361100013912 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 361100013913 UDP-glucose 4-epimerase; Region: PLN02240 361100013914 NAD binding site [chemical binding]; other site 361100013915 homodimer interface [polypeptide binding]; other site 361100013916 active site 361100013917 substrate binding site [chemical binding]; other site 361100013918 Haemolysin-III related; Region: HlyIII; cl03831 361100013919 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 361100013920 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 361100013921 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 361100013922 ATP binding site [chemical binding]; other site 361100013923 Mg++ binding site [ion binding]; other site 361100013924 motif III; other site 361100013925 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 361100013926 nucleotide binding region [chemical binding]; other site 361100013927 ATP-binding site [chemical binding]; other site 361100013928 DbpA RNA binding domain; Region: DbpA; pfam03880 361100013929 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 361100013930 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 361100013931 active site 361100013932 oligoendopeptidase F; Region: pepF; TIGR00181 361100013933 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 361100013934 active site 361100013935 Zn binding site [ion binding]; other site 361100013936 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100013937 FeS/SAM binding site; other site 361100013938 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 361100013939 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 361100013940 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 361100013941 YyzF-like protein; Region: YyzF; cl15733 361100013942 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 361100013943 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 361100013944 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 361100013945 protein binding site [polypeptide binding]; other site 361100013946 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 361100013947 YycH protein; Region: YycI; cl02015 361100013948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 361100013949 YycH protein; Region: YycH; pfam07435 361100013950 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 361100013951 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 361100013952 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 361100013953 dimerization interface [polypeptide binding]; other site 361100013954 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 361100013955 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 361100013956 dimer interface [polypeptide binding]; other site 361100013957 phosphorylation site [posttranslational modification] 361100013958 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 361100013959 ATP binding site [chemical binding]; other site 361100013960 Mg2+ binding site [ion binding]; other site 361100013961 G-X-G motif; other site 361100013962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 361100013963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 361100013964 active site 361100013965 phosphorylation site [posttranslational modification] 361100013966 intermolecular recognition site; other site 361100013967 dimerization interface [polypeptide binding]; other site 361100013968 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 361100013969 DNA binding site [nucleotide binding] 361100013970 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 361100013971 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 361100013972 GDP-binding site [chemical binding]; other site 361100013973 ACT binding site; other site 361100013974 IMP binding site; other site 361100013975 replicative DNA helicase; Provisional; Region: PRK05748 361100013976 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 361100013977 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 361100013978 Walker A motif; other site 361100013979 ATP binding site [chemical binding]; other site 361100013980 Walker B motif; other site 361100013981 DNA binding loops [nucleotide binding] 361100013982 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 361100013983 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 361100013984 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 361100013985 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 361100013986 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 361100013987 DHH family; Region: DHH; pfam01368 361100013988 DHHA1 domain; Region: DHHA1; pfam02272 361100013989 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 361100013990 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 361100013991 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 361100013992 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 361100013993 dimer interface [polypeptide binding]; other site 361100013994 ssDNA binding site [nucleotide binding]; other site 361100013995 tetramer (dimer of dimers) interface [polypeptide binding]; other site 361100013996 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 361100013997 GTP-binding protein YchF; Reviewed; Region: PRK09601 361100013998 YchF GTPase; Region: YchF; cd01900 361100013999 G1 box; other site 361100014000 GTP/Mg2+ binding site [chemical binding]; other site 361100014001 Switch I region; other site 361100014002 G2 box; other site 361100014003 Switch II region; other site 361100014004 G3 box; other site 361100014005 G4 box; other site 361100014006 G5 box; other site 361100014007 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 361100014008 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 361100014009 Mechanosensitive ion channel; Region: MS_channel; pfam00924 361100014010 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 361100014011 ParB-like partition proteins; Region: parB_part; TIGR00180 361100014012 ParB-like nuclease domain; Region: ParBc; cl02129 361100014013 KorB domain; Region: KorB; pfam08535 361100014014 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 361100014015 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 361100014016 P-loop; other site 361100014017 Magnesium ion binding site [ion binding]; other site 361100014018 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 361100014019 Magnesium ion binding site [ion binding]; other site 361100014020 ParB-like partition proteins; Region: parB_part; TIGR00180 361100014021 ParB-like nuclease domain; Region: ParBc; cl02129 361100014022 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100014023 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 361100014024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100014025 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 361100014026 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 361100014027 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 361100014028 trmE is a tRNA modification GTPase; Region: trmE; cd04164 361100014029 G1 box; other site 361100014030 GTP/Mg2+ binding site [chemical binding]; other site 361100014031 Switch I region; other site 361100014032 G2 box; other site 361100014033 Switch II region; other site 361100014034 G3 box; other site 361100014035 G4 box; other site 361100014036 G5 box; other site 361100014037 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 361100014038 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 361100014039 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 361100014040 G-X-X-G motif; other site 361100014041 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 361100014042 RxxxH motif; other site 361100014043 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 361100014044 Ribonuclease P; Region: Ribonuclease_P; cl00457 361100014045 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 361100014046 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 361100014047 active site 361100014048 catalytic site [active] 361100014049 substrate binding site [chemical binding]; other site 361100014050 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 361100014051 Protein of unknown function (DUF3967); Region: DUF3967; pfam13152 361100014052 plasmid segregation protein ParM; Provisional; Region: PRK13917 361100014053 Domain of unknown function (DUF3961); Region: DUF3961; pfam13106 361100014054 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100014055 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 361100014056 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 361100014057 amidase catalytic site [active] 361100014058 Zn binding residues [ion binding]; other site 361100014059 substrate binding site [chemical binding]; other site 361100014060 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 361100014061 Bacterial SH3 domain; Region: SH3_3; cl02551 361100014062 Holin family; Region: Phage_holin_4; cl01989 361100014063 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 361100014064 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 361100014065 Phage-related minor tail protein [Function unknown]; Region: COG5280 361100014066 Phage-related protein [Function unknown]; Region: COG5412 361100014067 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 361100014068 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 361100014069 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 361100014070 Phage capsid family; Region: Phage_capsid; pfam05065 361100014071 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 361100014072 Phage-related protein [Function unknown]; Region: COG4695; cl01923 361100014073 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 361100014074 Phage terminase large subunit; Region: Terminase_3; cl12054 361100014075 Terminase-like family; Region: Terminase_6; pfam03237 361100014076 Phage terminase small subunit; Region: Phage_terminase; pfam10668 361100014077 Uncharacterized conserved protein [Function unknown]; Region: COG5484 361100014078 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100014079 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100014080 catalytic residues [active] 361100014081 catalytic nucleophile [active] 361100014082 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100014083 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100014084 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100014085 Synaptic Site I dimer interface [polypeptide binding]; other site 361100014086 DNA binding site [nucleotide binding] 361100014087 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 361100014088 DNA-binding interface [nucleotide binding]; DNA binding site 361100014089 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100014090 positive control sigma-like factor; Validated; Region: PRK06930 361100014091 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 361100014092 DNA binding residues [nucleotide binding] 361100014093 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 361100014094 Recombination protein U; Region: RecU; cl01314 361100014095 Protein of unknown function (DUF3983); Region: DUF3983; pfam13137 361100014096 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 361100014097 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 361100014098 dUTPase; Region: dUTPase_2; pfam08761 361100014099 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 361100014100 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 361100014101 ORF6C domain; Region: ORF6C; pfam10552 361100014102 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100014103 non-specific DNA binding site [nucleotide binding]; other site 361100014104 salt bridge; other site 361100014105 sequence-specific DNA binding site [nucleotide binding]; other site 361100014106 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100014107 non-specific DNA binding site [nucleotide binding]; other site 361100014108 salt bridge; other site 361100014109 sequence-specific DNA binding site [nucleotide binding]; other site 361100014110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100014111 non-specific DNA binding site [nucleotide binding]; other site 361100014112 salt bridge; other site 361100014113 sequence-specific DNA binding site [nucleotide binding]; other site 361100014114 DNA polymerase III subunit beta; Validated; Region: PRK05643 361100014115 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 361100014116 putative DNA binding surface [nucleotide binding]; other site 361100014117 dimer interface [polypeptide binding]; other site 361100014118 beta-clamp/clamp loader binding surface; other site 361100014119 beta-clamp/translesion DNA polymerase binding surface; other site 361100014120 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 361100014121 PRTRC system protein A; Region: PRTRC_A; TIGR03735 361100014122 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 361100014123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 361100014124 ATP binding site [chemical binding]; other site 361100014125 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100014126 putative active site [active] 361100014127 putative NTP binding site [chemical binding]; other site 361100014128 putative nucleic acid binding site [nucleotide binding]; other site 361100014129 Type II intron maturase; Region: Intron_maturas2; pfam01348 361100014130 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 361100014131 active site 361100014132 NTP binding site [chemical binding]; other site 361100014133 metal binding triad [ion binding]; metal-binding site 361100014134 antibiotic binding site [chemical binding]; other site 361100014135 HEPN domain; Region: HEPN; cl00824 361100014136 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 361100014137 Active Sites [active] 361100014138 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100014139 active site 361100014140 Int/Topo IB signature motif; other site 361100014141 DNA binding site [nucleotide binding] 361100014142 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 361100014143 Helix-turn-helix domains; Region: HTH; cl00088 361100014144 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 361100014145 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 361100014146 Peptidase S8 family domain, uncharacterized subfamily 11; Region: Peptidases_S8_11; cd04843 361100014147 putative active site [active] 361100014148 putative catalytic triad [active] 361100014149 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 361100014150 Helix-turn-helix domains; Region: HTH; cl00088 361100014151 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 361100014152 active site 361100014153 NTP binding site [chemical binding]; other site 361100014154 metal binding triad [ion binding]; metal-binding site 361100014155 antibiotic binding site [chemical binding]; other site 361100014156 Protein of unknown function DUF86; Region: DUF86; cl01031 361100014157 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 361100014158 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 361100014159 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 361100014160 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100014161 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 361100014162 homodimer interface [polypeptide binding]; other site 361100014163 active site 361100014164 TDP-binding site; other site 361100014165 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 361100014166 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 361100014167 putative transposase OrfB; Reviewed; Region: PHA02517 361100014168 HTH-like domain; Region: HTH_21; pfam13276 361100014169 Integrase core domain; Region: rve; cl01316 361100014170 Integrase core domain; Region: rve_3; cl15866 361100014171 Helix-turn-helix domains; Region: HTH; cl00088 361100014172 Helix-turn-helix domains; Region: HTH; cl00088 361100014173 putative transposase OrfB; Reviewed; Region: PHA02517 361100014174 HTH-like domain; Region: HTH_21; pfam13276 361100014175 Integrase core domain; Region: rve; cl01316 361100014176 Integrase core domain; Region: rve_3; cl15866 361100014177 Protein of unknown function, DUF393; Region: DUF393; cl01136 361100014178 antimicrobial peptide system protein, SdpA family; Region: export_SdpA; TIGR04034 361100014179 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 361100014180 antimicrobial peptide, SdpC family; Region: toxin_SdpC; TIGR04032 361100014181 Helix-turn-helix domains; Region: HTH; cl00088 361100014182 Uncharacterized conserved protein [Function unknown]; Region: COG2128 361100014183 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 361100014184 Electron transfer DM13; Region: DM13; cl02735 361100014185 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014186 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100014187 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 361100014188 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 361100014189 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 361100014190 putative active site [active] 361100014191 catalytic site [active] 361100014192 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 361100014193 putative active site [active] 361100014194 catalytic site [active] 361100014195 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100014196 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100014197 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100014198 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100014199 catalytic residues [active] 361100014200 catalytic nucleophile [active] 361100014201 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100014202 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100014203 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100014204 Synaptic Site I dimer interface [polypeptide binding]; other site 361100014205 DNA binding site [nucleotide binding] 361100014206 Helix-turn-helix domains; Region: HTH; cl00088 361100014207 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014208 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014209 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100014210 active site 361100014211 Int/Topo IB signature motif; other site 361100014212 DNA binding site [nucleotide binding] 361100014213 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100014214 Proteins of 100 residues with WXG; Region: WXG100; cl02005 361100014215 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 361100014216 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 361100014217 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 361100014218 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100014219 Spore germination protein; Region: Spore_permease; cl15802 361100014220 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100014221 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100014222 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100014223 catalytic residues [active] 361100014224 catalytic nucleophile [active] 361100014225 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100014226 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100014227 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100014228 Synaptic Site I dimer interface [polypeptide binding]; other site 361100014229 DNA binding site [nucleotide binding] 361100014230 Helix-turn-helix domains; Region: HTH; cl00088 361100014231 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014232 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014233 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100014234 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014235 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014236 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014237 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014238 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014239 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014240 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014241 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014242 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014243 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014244 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014245 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014246 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014247 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014248 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014249 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014250 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014251 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014252 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014253 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014254 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014255 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014256 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014257 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014258 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014259 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014260 Fibronectin type III-like domain; Region: Fn3-like; cl15273 361100014261 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 361100014262 catalytic triad [active] 361100014263 conserved cis-peptide bond; other site 361100014264 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 361100014265 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 361100014266 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 361100014267 potential frameshift: common BLAST hit: gi|47525771|ref|YP_017120.1| penicillin-binding protein, putative 361100014268 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 361100014269 Protein of unknown function DUF91; Region: DUF91; cl00709 361100014270 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 361100014271 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100014272 active site 361100014273 DNA binding site [nucleotide binding] 361100014274 Int/Topo IB signature motif; other site 361100014275 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100014276 TPR motif; other site 361100014277 binding surface 361100014278 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 361100014279 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 361100014280 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 361100014281 ADP-ribose binding site [chemical binding]; other site 361100014282 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100014283 dimerization interface [polypeptide binding]; other site 361100014284 putative DNA binding site [nucleotide binding]; other site 361100014285 putative Zn2+ binding site [ion binding]; other site 361100014286 Staphylococcal nuclease homologues; Region: SNc; smart00318 361100014287 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 361100014288 Catalytic site; other site 361100014289 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 361100014290 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 361100014291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 361100014292 Walker A/P-loop; other site 361100014293 ATP binding site [chemical binding]; other site 361100014294 Q-loop/lid; other site 361100014295 ABC transporter signature motif; other site 361100014296 Walker B; other site 361100014297 D-loop; other site 361100014298 H-loop/switch region; other site 361100014299 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 361100014300 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 361100014301 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 361100014302 FeS/SAM binding site; other site 361100014303 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 361100014304 Predicted transcriptional regulators [Transcription]; Region: COG1725 361100014305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 361100014306 DNA-binding site [nucleotide binding]; DNA binding site 361100014307 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 361100014308 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 361100014309 Walker A/P-loop; other site 361100014310 ATP binding site [chemical binding]; other site 361100014311 Q-loop/lid; other site 361100014312 ABC transporter signature motif; other site 361100014313 Walker B; other site 361100014314 D-loop; other site 361100014315 H-loop/switch region; other site 361100014316 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 361100014317 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 361100014318 active site 361100014319 catalytic triad [active] 361100014320 transposase/IS protein; Provisional; Region: PRK09183 361100014321 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 361100014322 Walker A motif; other site 361100014323 ATP binding site [chemical binding]; other site 361100014324 Walker B motif; other site 361100014325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 361100014326 Restriction endonuclease; Region: Mrr_cat; cl00516 361100014327 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 361100014328 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100014329 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 361100014330 putative active site [active] 361100014331 putative NTP binding site [chemical binding]; other site 361100014332 putative nucleic acid binding site [nucleotide binding]; other site 361100014333 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 361100014334 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100014335 active site 361100014336 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 361100014337 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100014338 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 361100014339 putative active site [active] 361100014340 putative NTP binding site [chemical binding]; other site 361100014341 putative nucleic acid binding site [nucleotide binding]; other site 361100014342 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100014343 active site 361100014344 DEAD-like helicases superfamily; Region: DEXDc; smart00487 361100014345 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 361100014346 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100014347 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 361100014348 putative active site [active] 361100014349 putative NTP binding site [chemical binding]; other site 361100014350 putative nucleic acid binding site [nucleotide binding]; other site 361100014351 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100014352 active site 361100014353 Helix-turn-helix domains; Region: HTH; cl00088 361100014354 putative transposase OrfB; Reviewed; Region: PHA02517 361100014355 HTH-like domain; Region: HTH_21; pfam13276 361100014356 Integrase core domain; Region: rve; cl01316 361100014357 Integrase core domain; Region: rve_3; cl15866 361100014358 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100014359 dimerization interface [polypeptide binding]; other site 361100014360 putative DNA binding site [nucleotide binding]; other site 361100014361 putative Zn2+ binding site [ion binding]; other site 361100014362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 361100014363 Chitin binding domain; Region: Chitin_bind_3; cl03871 361100014364 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 361100014365 Interdomain contacts; other site 361100014366 Cytokine receptor motif; other site 361100014367 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 361100014368 Interdomain contacts; other site 361100014369 Cytokine receptor motif; other site 361100014370 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 361100014371 F0F1 ATP synthase subunit alpha; Validated; Region: PRK06763 361100014372 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 361100014373 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 361100014374 PAS domain; Region: PAS_9; pfam13426 361100014375 putative active site [active] 361100014376 heme pocket [chemical binding]; other site 361100014377 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 361100014378 dimer interface [polypeptide binding]; other site 361100014379 putative CheW interface [polypeptide binding]; other site 361100014380 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 361100014381 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 361100014382 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 361100014383 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 361100014384 active site 361100014385 Zn binding site [ion binding]; other site 361100014386 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 361100014387 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 361100014388 putative active site [active] 361100014389 NlpC/P60 family; Region: NLPC_P60; cl11438 361100014390 putative transposase OrfB; Reviewed; Region: PHA02517 361100014391 HTH-like domain; Region: HTH_21; pfam13276 361100014392 Integrase core domain; Region: rve; cl01316 361100014393 Integrase core domain; Region: rve_3; cl15866 361100014394 Helix-turn-helix domains; Region: HTH; cl00088 361100014395 Tetratricopeptide repeat; Region: TPR_12; pfam13424 361100014396 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 361100014397 TPR motif; other site 361100014398 binding surface 361100014399 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014400 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 361100014401 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 361100014402 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100014403 catalytic residues [active] 361100014404 catalytic nucleophile [active] 361100014405 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100014406 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100014407 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100014408 Synaptic Site I dimer interface [polypeptide binding]; other site 361100014409 DNA binding site [nucleotide binding] 361100014410 Helix-turn-helix domains; Region: HTH; cl00088 361100014411 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014412 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 361100014414 putative substrate translocation pore; other site 361100014415 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 361100014416 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 361100014417 active site 361100014418 motif I; other site 361100014419 motif II; other site 361100014420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014421 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014422 Helix-turn-helix domains; Region: HTH; cl00088 361100014423 putative transposase OrfB; Reviewed; Region: PHA02517 361100014424 HTH-like domain; Region: HTH_21; pfam13276 361100014425 Integrase core domain; Region: rve; cl01316 361100014426 Integrase core domain; Region: rve_3; cl15866 361100014427 hypothetical protein; Provisional; Region: PRK09609 361100014428 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014429 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 361100014430 Spore germination protein; Region: Spore_permease; cl15802 361100014431 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 361100014432 Protein of unknown function (DUF421); Region: DUF421; cl00990 361100014433 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100014434 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100014435 SpoVA protein; Region: SpoVA; cl04298 361100014436 stage V sporulation protein AD; Provisional; Region: PRK12404 361100014437 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 361100014438 SpoVA protein; Region: SpoVA; cl04298 361100014439 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 361100014440 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 361100014441 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 361100014442 active site 361100014443 DNA binding site [nucleotide binding] 361100014444 Int/Topo IB signature motif; other site 361100014445 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014446 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014447 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 361100014448 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 361100014449 ATP-grasp domain; Region: ATP-grasp_4; cl03087 361100014450 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 361100014451 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 361100014452 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 361100014453 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 361100014454 substrate binding site [chemical binding]; other site 361100014455 catalytic Zn binding site [ion binding]; other site 361100014456 NAD binding site [chemical binding]; other site 361100014457 structural Zn binding site [ion binding]; other site 361100014458 dimer interface [polypeptide binding]; other site 361100014459 Helix-turn-helix domains; Region: HTH; cl00088 361100014460 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 361100014461 catalytic residues [active] 361100014462 catalytic nucleophile [active] 361100014463 Presynaptic Site I dimer interface [polypeptide binding]; other site 361100014464 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 361100014465 Synaptic Flat tetramer interface [polypeptide binding]; other site 361100014466 Synaptic Site I dimer interface [polypeptide binding]; other site 361100014467 DNA binding site [nucleotide binding] 361100014468 Protein of unknown function (DUF4046); Region: DUF4046; pfam13255 361100014469 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 361100014470 IHF dimer interface [polypeptide binding]; other site 361100014471 IHF - DNA interface [nucleotide binding]; other site 361100014472 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 361100014473 Sm1 motif; other site 361100014474 D1 - D2 interaction site; other site 361100014475 D3 - B interaction site; other site 361100014476 Hfq - Hfq interaction site; other site 361100014477 RNA binding pocket [nucleotide binding]; other site 361100014478 Sm2 motif; other site 361100014479 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 361100014480 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 361100014481 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 361100014482 dimerization interface [polypeptide binding]; other site 361100014483 putative DNA binding site [nucleotide binding]; other site 361100014484 putative Zn2+ binding site [ion binding]; other site 361100014485 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014486 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 361100014487 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014488 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 361100014489 Helix-turn-helix domains; Region: HTH; cl00088 361100014490 Uncharacterized conserved protein [Function unknown]; Region: COG2128 361100014491 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 361100014492 Predicted permeases [General function prediction only]; Region: RarD; COG2962 361100014493 EamA-like transporter family; Region: EamA; cl01037 361100014494 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 361100014495 dimer interface [polypeptide binding]; other site 361100014496 putative tRNA-binding site [nucleotide binding]; other site 361100014497 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 361100014498 catalytic residues [active] 361100014499 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100014500 Protein of unknown function (DUF418); Region: DUF418; cl12135 361100014501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 361100014502 Helix-turn-helix domains; Region: HTH; cl00088 361100014503 Helix-turn-helix domains; Region: HTH; cl00088 361100014504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 361100014505 HTH-like domain; Region: HTH_21; pfam13276 361100014506 Integrase core domain; Region: rve; cl01316 361100014507 Integrase core domain; Region: rve_3; cl15866 361100014508 S-layer homology domain; Region: SLH; pfam00395 361100014509 S-layer homology domain; Region: SLH; pfam00395 361100014510 S-layer homology domain; Region: SLH; pfam00395 361100014511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100014512 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 361100014513 Probable transposase; Region: OrfB_IS605; pfam01385 361100014514 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100014515 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 361100014516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 361100014517 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 361100014518 Probable transposase; Region: OrfB_IS605; pfam01385 361100014519 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 361100014520 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 361100014521 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 361100014522 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 361100014523 Replication-relaxation; Region: Replic_Relax; pfam13814 361100014524 Domain of unknown function (DUF373); Region: DUF373; cl12079 361100014525 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 361100014526 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 361100014527 putative active site [active] 361100014528 putative NTP binding site [chemical binding]; other site 361100014529 putative nucleic acid binding site [nucleotide binding]; other site 361100014530 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 361100014531 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 361100014532 active site 361100014533 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 361100014534 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 361100014535 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 361100014536 phosphofructokinase family protein; Provisional; Region: PTZ00468 361100014537 Protein of unknown function (DUF3796); Region: DUF3796; pfam12676 361100014538 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 361100014539 non-specific DNA binding site [nucleotide binding]; other site 361100014540 salt bridge; other site 361100014541 sequence-specific DNA binding site [nucleotide binding]; other site 361100014542 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 361100014543 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936