-- dump date 20120504_134203 -- class Genbank::misc_feature -- table misc_feature_note -- id note 279010000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 279010000002 hypothetical protein; Validated; Region: PRK06672 279010000003 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 279010000004 Walker A motif; other site 279010000005 ATP binding site [chemical binding]; other site 279010000006 Walker B motif; other site 279010000007 arginine finger; other site 279010000008 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 279010000009 DnaA box-binding interface [nucleotide binding]; other site 279010000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 279010000011 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 279010000012 putative DNA binding surface [nucleotide binding]; other site 279010000013 dimer interface [polypeptide binding]; other site 279010000014 beta-clamp/clamp loader binding surface; other site 279010000015 beta-clamp/translesion DNA polymerase binding surface; other site 279010000016 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 279010000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 279010000018 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 279010000019 Walker A/P-loop; other site 279010000020 ATP binding site [chemical binding]; other site 279010000021 Q-loop/lid; other site 279010000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010000023 Q-loop/lid; other site 279010000024 ABC transporter signature motif; other site 279010000025 Walker B; other site 279010000026 D-loop; other site 279010000027 H-loop/switch region; other site 279010000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 279010000029 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 279010000030 ATP binding site [chemical binding]; other site 279010000031 Mg2+ binding site [ion binding]; other site 279010000032 G-X-G motif; other site 279010000033 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 279010000034 anchoring element; other site 279010000035 dimer interface [polypeptide binding]; other site 279010000036 ATP binding site [chemical binding]; other site 279010000037 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 279010000038 active site 279010000039 putative metal-binding site [ion binding]; other site 279010000040 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 279010000041 DNA gyrase subunit A; Validated; Region: PRK05560 279010000042 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 279010000043 CAP-like domain; other site 279010000044 active site 279010000045 primary dimer interface [polypeptide binding]; other site 279010000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010000052 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 279010000053 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 279010000054 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 279010000055 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 279010000056 active site 279010000057 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 279010000058 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 279010000059 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 279010000060 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 279010000061 active site 279010000062 multimer interface [polypeptide binding]; other site 279010000063 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 279010000064 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 279010000065 predicted active site [active] 279010000066 catalytic triad [active] 279010000067 seryl-tRNA synthetase; Provisional; Region: PRK05431 279010000068 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 279010000069 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 279010000070 dimer interface [polypeptide binding]; other site 279010000071 active site 279010000072 motif 1; other site 279010000073 motif 2; other site 279010000074 motif 3; other site 279010000075 Glycerate kinase family; Region: Gly_kinase; cl00841 279010000076 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 279010000077 GntP family permease; Region: GntP_permease; cl15264 279010000078 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 279010000079 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 279010000080 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 279010000081 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 279010000082 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 279010000083 Substrate-binding site [chemical binding]; other site 279010000084 Substrate specificity [chemical binding]; other site 279010000085 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 279010000086 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 279010000087 Substrate-binding site [chemical binding]; other site 279010000088 Substrate specificity [chemical binding]; other site 279010000089 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 279010000090 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 279010000091 putative peptidoglycan binding site; other site 279010000092 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 279010000093 putative peptidoglycan binding site; other site 279010000094 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 279010000095 active site 279010000096 Isochorismatase family; Region: Isochorismatase; pfam00857 279010000097 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 279010000098 catalytic triad [active] 279010000099 conserved cis-peptide bond; other site 279010000100 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 279010000101 nucleoside/Zn binding site; other site 279010000102 dimer interface [polypeptide binding]; other site 279010000103 catalytic motif [active] 279010000104 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 279010000105 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 279010000106 Walker A motif; other site 279010000107 ATP binding site [chemical binding]; other site 279010000108 Walker B motif; other site 279010000109 arginine finger; other site 279010000110 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 279010000111 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 279010000112 recombination protein RecR; Reviewed; Region: recR; PRK00076 279010000113 RecR protein; Region: RecR; pfam02132 279010000114 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 279010000115 putative active site [active] 279010000116 putative metal-binding site [ion binding]; other site 279010000117 tetramer interface [polypeptide binding]; other site 279010000118 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 279010000119 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 279010000120 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 279010000121 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 279010000122 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 279010000123 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 279010000124 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 279010000125 homodimer interface [polypeptide binding]; other site 279010000126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010000127 catalytic residue [active] 279010000128 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 279010000129 thymidylate kinase; Validated; Region: tmk; PRK00698 279010000130 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 279010000131 TMP-binding site; other site 279010000132 ATP-binding site [chemical binding]; other site 279010000133 Nitrogen regulatory protein P-II; Region: P-II; cl00412 279010000134 Protein of unknown function (DUF327); Region: DUF327; cl00753 279010000135 DNA polymerase III subunit delta'; Validated; Region: PRK08058 279010000136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010000137 PSP1 C-terminal conserved region; Region: PSP1; cl00770 279010000138 Protein of unknown function (DUF972); Region: DUF972; cl01853 279010000139 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 279010000140 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 279010000141 S-adenosylmethionine binding site [chemical binding]; other site 279010000142 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 279010000143 GIY-YIG motif/motif A; other site 279010000144 putative active site [active] 279010000145 putative metal binding site [ion binding]; other site 279010000146 Predicted methyltransferases [General function prediction only]; Region: COG0313 279010000147 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 279010000148 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 279010000149 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 279010000150 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 279010000151 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 279010000152 active site 279010000153 HIGH motif; other site 279010000154 KMSKS motif; other site 279010000155 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 279010000156 tRNA binding surface [nucleotide binding]; other site 279010000157 anticodon binding site; other site 279010000158 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 279010000159 dimer interface [polypeptide binding]; other site 279010000160 putative tRNA-binding site [nucleotide binding]; other site 279010000161 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 279010000162 active site 279010000163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 279010000164 Domain of unknown function (DUF348); Region: DUF348; pfam03990 279010000165 Domain of unknown function (DUF348); Region: DUF348; pfam03990 279010000166 Domain of unknown function (DUF348); Region: DUF348; pfam03990 279010000167 G5 domain; Region: G5; pfam07501 279010000168 3D domain; Region: 3D; cl01439 279010000169 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 279010000170 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 279010000171 putative active site [active] 279010000172 putative metal binding site [ion binding]; other site 279010000173 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 279010000174 S-adenosylmethionine binding site [chemical binding]; other site 279010000175 YabG peptidase U57; Region: Peptidase_U57; cl05250 279010000176 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 279010000177 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 279010000178 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 279010000179 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 279010000180 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 279010000181 pur operon repressor; Provisional; Region: PRK09213 279010000182 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 279010000183 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010000184 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 279010000185 homotrimer interaction site [polypeptide binding]; other site 279010000186 putative active site [active] 279010000187 SpoVG; Region: SpoVG; cl00915 279010000188 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 279010000189 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 279010000190 Substrate binding site; other site 279010000191 Mg++ binding site; other site 279010000192 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 279010000193 active site 279010000194 substrate binding site [chemical binding]; other site 279010000195 CoA binding site [chemical binding]; other site 279010000196 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 279010000197 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010000198 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 279010000199 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 279010000200 5S rRNA interface [nucleotide binding]; other site 279010000201 CTC domain interface [polypeptide binding]; other site 279010000202 L16 interface [polypeptide binding]; other site 279010000203 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 279010000204 putative active site [active] 279010000205 catalytic residue [active] 279010000206 Protein of unknown function (DUF2757); Region: DUF2757; pfam10955 279010000207 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 279010000208 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 279010000209 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 279010000210 ATP binding site [chemical binding]; other site 279010000211 putative Mg++ binding site [ion binding]; other site 279010000212 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 279010000213 nucleotide binding region [chemical binding]; other site 279010000214 ATP-binding site [chemical binding]; other site 279010000215 TRCF domain; Region: TRCF; cl04088 279010000216 stage V sporulation protein T; Region: spore_V_T; TIGR02851 279010000217 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 279010000218 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 279010000219 MatE; Region: MatE; cl10513 279010000220 MatE; Region: MatE; cl10513 279010000221 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 279010000222 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 279010000223 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 279010000224 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 279010000225 RNA binding surface [nucleotide binding]; other site 279010000226 YabP family; Region: YabP; cl06766 279010000227 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 279010000228 Septum formation initiator; Region: DivIC; cl11433 279010000229 hypothetical protein; Provisional; Region: PRK08582 279010000230 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 279010000231 RNA binding site [nucleotide binding]; other site 279010000232 stage II sporulation protein E; Region: spore_II_E; TIGR02865 279010000233 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 279010000234 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 279010000235 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 279010000236 metal ion-dependent adhesion site (MIDAS); other site 279010000237 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010000238 active site 279010000239 ATP binding site [chemical binding]; other site 279010000240 substrate binding site [chemical binding]; other site 279010000241 activation loop (A-loop); other site 279010000242 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 279010000243 Ligand Binding Site [chemical binding]; other site 279010000244 TilS substrate binding domain; Region: TilS; pfam09179 279010000245 B3/4 domain; Region: B3_4; cl11458 279010000246 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010000247 FtsH Extracellular; Region: FtsH_ext; pfam06480 279010000248 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 279010000249 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 279010000250 Walker A motif; other site 279010000251 ATP binding site [chemical binding]; other site 279010000252 Walker B motif; other site 279010000253 arginine finger; other site 279010000254 Peptidase family M41; Region: Peptidase_M41; pfam01434 279010000255 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 279010000256 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 279010000257 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 279010000258 dimerization interface [polypeptide binding]; other site 279010000259 domain crossover interface; other site 279010000260 redox-dependent activation switch; other site 279010000261 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 279010000262 PPIC-type PPIASE domain; Region: Rotamase; cl08278 279010000263 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 279010000264 dimer interface [polypeptide binding]; other site 279010000265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010000266 catalytic residue [active] 279010000267 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 279010000268 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 279010000269 chorismate binding enzyme; Region: Chorismate_bind; cl10555 279010000270 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 279010000271 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 279010000272 glutamine binding [chemical binding]; other site 279010000273 catalytic triad [active] 279010000274 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 279010000275 Aminotransferase class IV; Region: Aminotran_4; pfam01063 279010000276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010000277 catalytic residue [active] 279010000278 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 279010000279 dihydropteroate synthase; Region: DHPS; TIGR01496 279010000280 substrate binding pocket [chemical binding]; other site 279010000281 dimer interface [polypeptide binding]; other site 279010000282 inhibitor binding site; inhibition site 279010000283 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 279010000284 homooctamer interface [polypeptide binding]; other site 279010000285 active site 279010000286 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 279010000287 catalytic center binding site [active] 279010000288 ATP binding site [chemical binding]; other site 279010000289 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 279010000290 non-specific DNA binding site [nucleotide binding]; other site 279010000291 salt bridge; other site 279010000292 sequence-specific DNA binding site [nucleotide binding]; other site 279010000293 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 279010000294 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 279010000295 FMN binding site [chemical binding]; other site 279010000296 active site 279010000297 catalytic residues [active] 279010000298 substrate binding site [chemical binding]; other site 279010000299 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 279010000300 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 279010000301 dimer interface [polypeptide binding]; other site 279010000302 putative anticodon binding site; other site 279010000303 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 279010000304 motif 1; other site 279010000305 active site 279010000306 motif 2; other site 279010000307 motif 3; other site 279010000308 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 279010000309 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 279010000310 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 279010000311 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 279010000312 ADP binding site [chemical binding]; other site 279010000313 phosphagen binding site; other site 279010000314 substrate specificity loop; other site 279010000315 Clp protease ATP binding subunit; Region: clpC; CHL00095 279010000316 Clp amino terminal domain; Region: Clp_N; pfam02861 279010000317 Clp amino terminal domain; Region: Clp_N; pfam02861 279010000318 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 279010000319 Walker A motif; other site 279010000320 ATP binding site [chemical binding]; other site 279010000321 Walker B motif; other site 279010000322 arginine finger; other site 279010000323 UvrB/uvrC motif; Region: UVR; pfam02151 279010000324 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 279010000325 Walker A motif; other site 279010000326 ATP binding site [chemical binding]; other site 279010000327 Walker B motif; other site 279010000328 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 279010000329 DNA repair protein RadA; Provisional; Region: PRK11823 279010000330 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 279010000331 Walker A motif/ATP binding site; other site 279010000332 ATP binding site [chemical binding]; other site 279010000333 Walker B motif; other site 279010000334 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 279010000335 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 279010000336 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 279010000337 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 279010000338 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 279010000339 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 279010000340 putative active site [active] 279010000341 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 279010000342 substrate binding site; other site 279010000343 dimer interface; other site 279010000344 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 279010000345 homotrimer interaction site [polypeptide binding]; other site 279010000346 zinc binding site [ion binding]; other site 279010000347 CDP-binding sites; other site 279010000348 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 279010000349 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 279010000350 HIGH motif; other site 279010000351 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 279010000352 active site 279010000353 KMSKS motif; other site 279010000354 serine O-acetyltransferase; Region: cysE; TIGR01172 279010000355 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 279010000356 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 279010000357 trimer interface [polypeptide binding]; other site 279010000358 active site 279010000359 substrate binding site [chemical binding]; other site 279010000360 CoA binding site [chemical binding]; other site 279010000361 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 279010000362 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 279010000363 active site 279010000364 HIGH motif; other site 279010000365 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 279010000366 KMSKS motif; other site 279010000367 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 279010000368 tRNA binding surface [nucleotide binding]; other site 279010000369 anticodon binding site; other site 279010000370 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 279010000371 active site 279010000372 metal binding site [ion binding]; metal-binding site 279010000373 dimerization interface [polypeptide binding]; other site 279010000374 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 279010000375 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 279010000376 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 279010000377 YacP-like NYN domain; Region: NYN_YacP; cl01491 279010000378 RNA polymerase factor sigma-70; Validated; Region: PRK08295 279010000379 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010000380 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; cl15358 279010000381 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 279010000382 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 279010000383 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 279010000384 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 279010000385 putative homodimer interface [polypeptide binding]; other site 279010000386 KOW motif; Region: KOW; cl00354 279010000387 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 279010000388 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 279010000389 23S rRNA interface [nucleotide binding]; other site 279010000390 L7/L12 interface [polypeptide binding]; other site 279010000391 putative thiostrepton binding site; other site 279010000392 L25 interface [polypeptide binding]; other site 279010000393 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 279010000394 mRNA/rRNA interface [nucleotide binding]; other site 279010000395 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 279010000396 23S rRNA interface [nucleotide binding]; other site 279010000397 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 279010000398 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 279010000399 core dimer interface [polypeptide binding]; other site 279010000400 peripheral dimer interface [polypeptide binding]; other site 279010000401 L10 interface [polypeptide binding]; other site 279010000402 L11 interface [polypeptide binding]; other site 279010000403 putative EF-Tu interaction site [polypeptide binding]; other site 279010000404 putative EF-G interaction site [polypeptide binding]; other site 279010000405 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 279010000406 S-adenosylmethionine binding site [chemical binding]; other site 279010000407 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 279010000408 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 279010000409 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 279010000410 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 279010000411 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 279010000412 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 279010000413 RPB1 interaction site [polypeptide binding]; other site 279010000414 RPB10 interaction site [polypeptide binding]; other site 279010000415 RPB11 interaction site [polypeptide binding]; other site 279010000416 RPB3 interaction site [polypeptide binding]; other site 279010000417 RPB12 interaction site [polypeptide binding]; other site 279010000418 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 279010000419 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 279010000420 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 279010000421 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 279010000422 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 279010000423 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 279010000424 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 279010000425 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 279010000426 G-loop; other site 279010000427 DNA binding site [nucleotide binding] 279010000428 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 279010000429 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 279010000430 S17 interaction site [polypeptide binding]; other site 279010000431 S8 interaction site; other site 279010000432 16S rRNA interaction site [nucleotide binding]; other site 279010000433 streptomycin interaction site [chemical binding]; other site 279010000434 23S rRNA interaction site [nucleotide binding]; other site 279010000435 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 279010000436 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 279010000437 elongation factor G; Reviewed; Region: PRK00007 279010000438 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 279010000439 G1 box; other site 279010000440 putative GEF interaction site [polypeptide binding]; other site 279010000441 GTP/Mg2+ binding site [chemical binding]; other site 279010000442 Switch I region; other site 279010000443 G2 box; other site 279010000444 G3 box; other site 279010000445 Switch II region; other site 279010000446 G4 box; other site 279010000447 G5 box; other site 279010000448 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 279010000449 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 279010000450 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 279010000451 elongation factor Tu; Reviewed; Region: PRK00049 279010000452 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 279010000453 G1 box; other site 279010000454 GEF interaction site [polypeptide binding]; other site 279010000455 GTP/Mg2+ binding site [chemical binding]; other site 279010000456 Switch I region; other site 279010000457 G2 box; other site 279010000458 G3 box; other site 279010000459 Switch II region; other site 279010000460 G4 box; other site 279010000461 G5 box; other site 279010000462 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 279010000463 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 279010000464 Antibiotic Binding Site [chemical binding]; other site 279010000465 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 279010000466 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 279010000467 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 279010000468 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 279010000469 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 279010000470 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 279010000471 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 279010000472 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 279010000473 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 279010000474 putative translocon binding site; other site 279010000475 protein-rRNA interface [nucleotide binding]; other site 279010000476 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 279010000477 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 279010000478 G-X-X-G motif; other site 279010000479 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 279010000480 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 279010000481 23S rRNA interface [nucleotide binding]; other site 279010000482 5S rRNA interface [nucleotide binding]; other site 279010000483 putative antibiotic binding site [chemical binding]; other site 279010000484 L25 interface [polypeptide binding]; other site 279010000485 L27 interface [polypeptide binding]; other site 279010000486 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 279010000487 23S rRNA interface [nucleotide binding]; other site 279010000488 putative translocon interaction site; other site 279010000489 signal recognition particle (SRP54) interaction site; other site 279010000490 L23 interface [polypeptide binding]; other site 279010000491 trigger factor interaction site; other site 279010000492 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 279010000493 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 279010000494 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 279010000495 KOW motif; Region: KOW; cl00354 279010000496 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 279010000497 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 279010000498 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 279010000499 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 279010000500 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 279010000501 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 279010000502 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 279010000503 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 279010000504 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 279010000505 5S rRNA interface [nucleotide binding]; other site 279010000506 L27 interface [polypeptide binding]; other site 279010000507 23S rRNA interface [nucleotide binding]; other site 279010000508 L5 interface [polypeptide binding]; other site 279010000509 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 279010000510 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 279010000511 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 279010000512 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 279010000513 23S rRNA binding site [nucleotide binding]; other site 279010000514 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 279010000515 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 279010000516 SecY translocase; Region: SecY; pfam00344 279010000517 adenylate kinase; Reviewed; Region: adk; PRK00279 279010000518 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 279010000519 AMP-binding site [chemical binding]; other site 279010000520 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 279010000521 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 279010000522 active site 279010000523 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 279010000524 rRNA binding site [nucleotide binding]; other site 279010000525 predicted 30S ribosome binding site; other site 279010000526 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 279010000527 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 279010000528 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 279010000529 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 279010000530 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 279010000531 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 279010000532 alphaNTD homodimer interface [polypeptide binding]; other site 279010000533 alphaNTD - beta interaction site [polypeptide binding]; other site 279010000534 alphaNTD - beta' interaction site [polypeptide binding]; other site 279010000535 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 279010000536 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 279010000537 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 279010000538 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 279010000539 Walker A/P-loop; other site 279010000540 ATP binding site [chemical binding]; other site 279010000541 Q-loop/lid; other site 279010000542 ABC transporter signature motif; other site 279010000543 Walker B; other site 279010000544 D-loop; other site 279010000545 H-loop/switch region; other site 279010000546 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 279010000547 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 279010000548 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 279010000549 Walker A/P-loop; other site 279010000550 ATP binding site [chemical binding]; other site 279010000551 Q-loop/lid; other site 279010000552 ABC transporter signature motif; other site 279010000553 Walker B; other site 279010000554 D-loop; other site 279010000555 H-loop/switch region; other site 279010000556 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 279010000557 Cobalt transport protein; Region: CbiQ; cl00463 279010000558 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 279010000559 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 279010000560 dimerization interface 3.5A [polypeptide binding]; other site 279010000561 active site 279010000562 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 279010000563 23S rRNA interface [nucleotide binding]; other site 279010000564 L3 interface [polypeptide binding]; other site 279010000565 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 279010000566 DinB superfamily; Region: DinB_2; cl00986 279010000567 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 279010000568 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 279010000569 active site 279010000570 metal binding site [ion binding]; metal-binding site 279010000571 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 279010000572 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 279010000573 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010000574 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010000575 Membrane transport protein; Region: Mem_trans; cl09117 279010000576 bile acid transporter; Region: bass; TIGR00841 279010000577 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 279010000578 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 279010000579 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 279010000580 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 279010000581 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 279010000582 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 279010000583 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010000584 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 279010000585 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 279010000586 active site turn [active] 279010000587 phosphorylation site [posttranslational modification] 279010000588 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010000589 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 279010000590 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 279010000591 putative active site [active] 279010000592 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 279010000593 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 279010000594 putative active site [active] 279010000595 Protein of unknown function (DUF523); Region: DUF523; cl00733 279010000596 Arginase family; Region: Arginase; cl00306 279010000597 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 279010000598 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010000599 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 279010000600 DNA binding residues [nucleotide binding] 279010000601 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 279010000602 Anti-sigma-K factor rskA; Region: RskA; cl15366 279010000603 TIGR00159 family protein; Region: TIGR00159 279010000604 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 279010000605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 279010000606 YbbR-like protein; Region: YbbR; pfam07949 279010000607 YbbR-like protein; Region: YbbR; pfam07949 279010000608 YbbR-like protein; Region: YbbR; pfam07949 279010000609 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 279010000610 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 279010000611 active site 279010000612 substrate binding site [chemical binding]; other site 279010000613 metal binding site [ion binding]; metal-binding site 279010000614 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 279010000615 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 279010000616 glutaminase active site [active] 279010000617 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 279010000618 dimer interface [polypeptide binding]; other site 279010000619 active site 279010000620 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 279010000621 dimer interface [polypeptide binding]; other site 279010000622 active site 279010000623 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 279010000624 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010000625 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 279010000626 Walker A/P-loop; other site 279010000627 ATP binding site [chemical binding]; other site 279010000628 Q-loop/lid; other site 279010000629 ABC transporter signature motif; other site 279010000630 Walker B; other site 279010000631 D-loop; other site 279010000632 H-loop/switch region; other site 279010000633 Predicted transcriptional regulators [Transcription]; Region: COG1725 279010000634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010000635 DNA-binding site [nucleotide binding]; DNA binding site 279010000636 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 279010000637 putative DNA binding site [nucleotide binding]; other site 279010000638 putative Zn2+ binding site [ion binding]; other site 279010000639 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 279010000640 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 279010000641 putative substrate translocation pore; other site 279010000642 DinB superfamily; Region: DinB_2; cl00986 279010000643 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010000644 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010000645 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010000646 Walker A/P-loop; other site 279010000647 ATP binding site [chemical binding]; other site 279010000648 Q-loop/lid; other site 279010000649 ABC transporter signature motif; other site 279010000650 Walker B; other site 279010000651 D-loop; other site 279010000652 H-loop/switch region; other site 279010000653 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 279010000654 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 279010000655 catalytic residues [active] 279010000656 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 279010000657 putative hydrophobic ligand binding site [chemical binding]; other site 279010000658 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 279010000659 Phosphotransferase enzyme family; Region: APH; pfam01636 279010000660 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010000661 active site 279010000662 ATP binding site [chemical binding]; other site 279010000663 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010000664 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 279010000665 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 279010000666 active site 279010000667 motif I; other site 279010000668 motif II; other site 279010000669 Amino acid permease; Region: AA_permease; cl00524 279010000670 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 279010000671 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010000672 Citrate transporter; Region: CitMHS; pfam03600 279010000673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 279010000674 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010000675 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 279010000676 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 279010000677 active site 279010000678 phosphorylation site [posttranslational modification] 279010000679 intermolecular recognition site; other site 279010000680 dimerization interface [polypeptide binding]; other site 279010000681 Transcriptional regulator; Region: CitT; pfam12431 279010000682 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 279010000683 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 279010000684 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 279010000685 ATP binding site [chemical binding]; other site 279010000686 Mg2+ binding site [ion binding]; other site 279010000687 G-X-G motif; other site 279010000688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010000689 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000690 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 279010000691 dimerization interface [polypeptide binding]; other site 279010000692 Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]; Region: PurD; COG0151 279010000693 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010000694 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 279010000695 putative transporter; Provisional; Region: PRK10054 279010000696 putative substrate translocation pore; other site 279010000697 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 279010000698 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 279010000699 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 279010000700 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 279010000701 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 279010000702 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 279010000703 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 279010000704 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 279010000705 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 279010000706 active site 279010000707 dimer interface [polypeptide binding]; other site 279010000708 motif 1; other site 279010000709 motif 2; other site 279010000710 motif 3; other site 279010000711 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 279010000712 anticodon binding site; other site 279010000713 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010000714 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 279010000715 Protein of unknown function (DUF692); Region: DUF692; cl01263 279010000716 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 279010000717 putative substrate translocation pore; other site 279010000718 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 279010000719 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 279010000720 S-adenosylmethionine binding site [chemical binding]; other site 279010000721 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 279010000722 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 279010000723 NADP binding site [chemical binding]; other site 279010000724 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 279010000725 yiaA/B two helix domain; Region: YiaAB; cl01759 279010000726 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 279010000727 EamA-like transporter family; Region: EamA; cl01037 279010000728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010000729 EamA-like transporter family; Region: EamA; cl01037 279010000730 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 279010000731 non-specific DNA binding site [nucleotide binding]; other site 279010000732 salt bridge; other site 279010000733 sequence-specific DNA binding site [nucleotide binding]; other site 279010000734 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 279010000735 DNA binding residues [nucleotide binding] 279010000736 dimerization interface [polypeptide binding]; other site 279010000737 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 279010000738 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 279010000739 putative active site [active] 279010000740 metal binding site [ion binding]; metal-binding site 279010000741 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 279010000742 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 279010000743 dimerization interface [polypeptide binding]; other site 279010000744 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010000745 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010000746 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 279010000747 Periplasmic xylose-binding component of the 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_ABC_xylose_binding; cd01538 279010000748 putative ligand binding site [chemical binding]; other site 279010000749 SurA N-terminal domain; Region: SurA_N; pfam09312 279010000750 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 279010000751 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 279010000752 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 279010000753 Amino acid permease; Region: AA_permease; cl00524 279010000754 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 279010000755 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 279010000756 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 279010000757 YdjC-like protein; Region: YdjC; cl01344 279010000758 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 279010000759 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010000760 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 279010000761 active site turn [active] 279010000762 phosphorylation site [posttranslational modification] 279010000763 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 279010000764 DNA binding residues [nucleotide binding] 279010000765 dimer interface [polypeptide binding]; other site 279010000766 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 279010000767 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010000768 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 279010000769 trimer interface [polypeptide binding]; other site 279010000770 active site 279010000771 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 279010000772 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010000773 Glutaminase; Region: Glutaminase; cl00907 279010000774 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279010000775 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 279010000776 ATP binding site [chemical binding]; other site 279010000777 Mg2+ binding site [ion binding]; other site 279010000778 G-X-G motif; other site 279010000779 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 279010000780 Response regulator receiver domain; Region: Response_reg; pfam00072 279010000781 active site 279010000782 phosphorylation site [posttranslational modification] 279010000783 intermolecular recognition site; other site 279010000784 dimerization interface [polypeptide binding]; other site 279010000785 YcbB domain; Region: YcbB; pfam08664 279010000786 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010000787 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010000788 Peptidase family M48; Region: Peptidase_M48; cl12018 279010000789 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010000790 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 279010000791 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010000793 PhoD-like phosphatase; Region: PhoD; pfam09423 279010000794 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 279010000795 putative active site [active] 279010000796 putative metal binding site [ion binding]; other site 279010000797 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 279010000798 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 279010000799 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 279010000800 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 279010000801 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 279010000802 putative active site [active] 279010000803 catalytic residue [active] 279010000804 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 279010000805 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010000806 NAD(P) binding site [chemical binding]; other site 279010000807 catalytic residues [active] 279010000808 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 279010000809 D-galactonate transporter; Region: 2A0114; TIGR00893 279010000810 putative substrate translocation pore; other site 279010000811 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 279010000812 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 279010000813 active site 279010000814 tetramer interface [polypeptide binding]; other site 279010000815 Transcriptional regulators [Transcription]; Region: FadR; COG2186 279010000816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010000817 DNA-binding site [nucleotide binding]; DNA binding site 279010000818 FCD domain; Region: FCD; cl11656 279010000819 galactarate dehydratase; Region: galactar-dH20; TIGR03248 279010000820 SAF domain; Region: SAF; cl00555 279010000821 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 279010000822 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010000823 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 279010000824 Walker A/P-loop; other site 279010000825 ATP binding site [chemical binding]; other site 279010000826 Q-loop/lid; other site 279010000827 ABC transporter signature motif; other site 279010000828 Walker B; other site 279010000829 D-loop; other site 279010000830 H-loop/switch region; other site 279010000831 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 279010000832 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 279010000833 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' 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: MPH2'; cd05152 279010000834 putative active site [active] 279010000835 putative substrate binding site [chemical binding]; other site 279010000836 ATP binding site [chemical binding]; other site 279010000837 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000838 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 279010000839 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010000840 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 279010000841 serpin-like protein; Provisional; Region: PHA02660 279010000842 reactive center loop; other site 279010000843 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 279010000844 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279010000845 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 279010000846 DNA binding residues [nucleotide binding] 279010000847 dimer interface [polypeptide binding]; other site 279010000848 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 279010000849 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000850 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 279010000851 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 279010000852 dodecamer interface 2 [polypeptide binding]; other site 279010000853 dodecamer interface 1 [polypeptide binding]; other site 279010000854 trimer interface [polypeptide binding]; other site 279010000855 TRAP binding interface [polypeptide binding]; other site 279010000856 Zn binding site [ion binding]; other site 279010000857 EamA-like transporter family; Region: EamA; cl01037 279010000858 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010000859 EamA-like transporter family; Region: EamA; cl01037 279010000860 RDD family; Region: RDD; cl00746 279010000861 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 279010000862 SEC-C motif; Region: SEC-C; pfam02810 279010000863 helix-turn-helix, Psq domain; Region: HTH_psq; pfam05225 279010000864 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 279010000865 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 279010000866 Walker A/P-loop; other site 279010000867 ATP binding site [chemical binding]; other site 279010000868 Q-loop/lid; other site 279010000869 ABC transporter signature motif; other site 279010000870 Walker B; other site 279010000871 D-loop; other site 279010000872 H-loop/switch region; other site 279010000873 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010000874 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010000875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010000876 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 279010000877 active site 279010000878 phosphorylation site [posttranslational modification] 279010000879 intermolecular recognition site; other site 279010000880 dimerization interface [polypeptide binding]; other site 279010000881 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 279010000882 DNA binding site [nucleotide binding] 279010000883 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 279010000884 dimer interface [polypeptide binding]; other site 279010000885 phosphorylation site [posttranslational modification] 279010000886 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 279010000887 ATP binding site [chemical binding]; other site 279010000888 Mg2+ binding site [ion binding]; other site 279010000889 G-X-G motif; other site 279010000890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010000891 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000892 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 279010000893 dimerization interface [polypeptide binding]; other site 279010000894 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 279010000895 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 279010000896 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 279010000897 classical (c) SDRs; Region: SDR_c; cd05233 279010000898 NAD(P) binding site [chemical binding]; other site 279010000899 active site 279010000900 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 279010000901 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 279010000902 S-adenosylmethionine binding site [chemical binding]; other site 279010000903 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 279010000904 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010000905 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279010000906 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 279010000907 metal binding site [ion binding]; metal-binding site 279010000908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010000909 Coenzyme A binding pocket [chemical binding]; other site 279010000910 amidase; Provisional; Region: PRK06529 279010000911 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; cl11426 279010000912 oligoendopeptidase F; Region: pepF; TIGR00181 279010000913 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 279010000914 active site 279010000915 Zn binding site [ion binding]; other site 279010000916 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010000917 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 279010000918 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 279010000919 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 279010000920 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 279010000921 Cysteine-rich domain; Region: CCG; pfam02754 279010000922 Cysteine-rich domain; Region: CCG; pfam02754 279010000923 FAD binding domain; Region: FAD_binding_4; pfam01565 279010000924 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 279010000925 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 279010000926 active site 279010000927 P-loop; other site 279010000928 phosphorylation site [posttranslational modification] 279010000929 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 279010000930 methionine cluster; other site 279010000931 active site 279010000932 phosphorylation site [posttranslational modification] 279010000933 metal binding site [ion binding]; metal-binding site 279010000934 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010000935 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 279010000936 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 279010000937 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 279010000938 NAD binding site [chemical binding]; other site 279010000939 sugar binding site [chemical binding]; other site 279010000940 divalent metal binding site [ion binding]; other site 279010000941 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010000942 dimer interface [polypeptide binding]; other site 279010000943 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 279010000944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010000945 DNA-binding site [nucleotide binding]; DNA binding site 279010000946 UTRA domain; Region: UTRA; cl01230 279010000947 YdjC-like protein; Region: YdjC; cl01344 279010000948 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 279010000949 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 279010000950 active site 279010000951 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 279010000952 Interdomain contacts; other site 279010000953 Cytokine receptor motif; other site 279010000954 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 279010000955 chitin/cellulose binding site [chemical binding]; other site 279010000956 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 279010000957 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 279010000958 active site 279010000959 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 279010000960 Chitinase C; Region: ChiC; pfam06483 279010000961 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 279010000962 active site 279010000963 glucose-1-dehydrogenase; Provisional; Region: PRK08936 279010000964 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 279010000965 NAD binding site [chemical binding]; other site 279010000966 homodimer interface [polypeptide binding]; other site 279010000967 active site 279010000968 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 279010000969 Protein of unknown function; Region: DUF3658; pfam12395 279010000970 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 279010000971 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 279010000972 active site residue [active] 279010000973 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 279010000974 active site residue [active] 279010000975 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 279010000976 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279010000977 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279010000978 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 279010000979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 279010000980 NlpC/P60 family; Region: NLPC_P60; cl11438 279010000981 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010000982 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 279010000983 Walker A/P-loop; other site 279010000984 ATP binding site [chemical binding]; other site 279010000985 Q-loop/lid; other site 279010000986 ABC transporter signature motif; other site 279010000987 Walker B; other site 279010000988 D-loop; other site 279010000989 H-loop/switch region; other site 279010000990 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010000991 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000992 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 279010000993 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010000994 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 279010000995 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 279010000996 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 279010000997 putative metal binding site [ion binding]; other site 279010000998 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 279010000999 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 279010001000 putative metal binding site [ion binding]; other site 279010001001 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 279010001002 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 279010001003 putative metal binding site [ion binding]; other site 279010001004 Integral membrane protein TerC family; Region: TerC; cl10468 279010001005 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 279010001006 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 279010001007 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 279010001008 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 279010001009 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 279010001010 DNA binding residues [nucleotide binding] 279010001011 dimer interface [polypeptide binding]; other site 279010001012 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 279010001013 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 279010001014 putative substrate translocation pore; other site 279010001015 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 279010001016 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 279010001017 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010001018 NAD binding site [chemical binding]; other site 279010001019 dimer interface [polypeptide binding]; other site 279010001020 substrate binding site [chemical binding]; other site 279010001021 glycolate transporter; Provisional; Region: PRK09695 279010001022 L-lactate permease; Region: Lactate_perm; cl00701 279010001023 LysE type translocator; Region: LysE; cl00565 279010001024 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 279010001025 Amino acid permease; Region: AA_permease; cl00524 279010001026 NAD+ synthetase; Region: nadE; TIGR00552 279010001027 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 279010001028 homodimer interface [polypeptide binding]; other site 279010001029 NAD binding pocket [chemical binding]; other site 279010001030 ATP binding pocket [chemical binding]; other site 279010001031 Mg binding site [ion binding]; other site 279010001032 active-site loop [active] 279010001033 shikimate kinase; Reviewed; Region: aroK; PRK00131 279010001034 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 279010001035 ADP binding site [chemical binding]; other site 279010001036 magnesium binding site [ion binding]; other site 279010001037 putative shikimate binding site; other site 279010001038 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 279010001039 Proline dehydrogenase; Region: Pro_dh; cl03282 279010001040 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 279010001041 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 279010001042 Glutamate binding site [chemical binding]; other site 279010001043 homodimer interface [polypeptide binding]; other site 279010001044 NAD binding site [chemical binding]; other site 279010001045 catalytic residues [active] 279010001046 Sodium:solute symporter family; Region: SSF; cl00456 279010001047 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 279010001048 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 279010001049 Predicted permease; Region: DUF318; cl00487 279010001050 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 279010001051 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 279010001052 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001053 hypothetical protein; Provisional; Region: PRK09272 279010001054 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 279010001055 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 279010001056 dimer interface [polypeptide binding]; other site 279010001057 conserved gate region; other site 279010001058 putative PBP binding loops; other site 279010001059 ABC-ATPase subunit interface; other site 279010001060 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 279010001061 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 279010001062 substrate binding pocket [chemical binding]; other site 279010001063 membrane-bound complex binding site; other site 279010001064 hinge residues; other site 279010001065 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010001066 Predicted ATPase [General function prediction only]; Region: COG3910 279010001067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010001068 Walker A/P-loop; other site 279010001069 ATP binding site [chemical binding]; other site 279010001070 Q-loop/lid; other site 279010001071 ABC transporter signature motif; other site 279010001072 Walker B; other site 279010001073 D-loop; other site 279010001074 H-loop/switch region; other site 279010001075 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010001076 Competence protein J (ComJ); Region: ComJ; pfam11033 279010001077 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 279010001078 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 279010001079 Catalytic domain of Protein Kinases; Region: PKc; cd00180 279010001080 active site 279010001081 ATP binding site [chemical binding]; other site 279010001082 substrate binding site [chemical binding]; other site 279010001083 activation loop (A-loop); other site 279010001084 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010001085 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 279010001086 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 279010001087 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 279010001088 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 279010001089 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 279010001090 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 279010001091 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 279010001092 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 279010001093 Walker A/P-loop; other site 279010001094 ATP binding site [chemical binding]; other site 279010001095 Q-loop/lid; other site 279010001096 ABC transporter signature motif; other site 279010001097 Walker B; other site 279010001098 D-loop; other site 279010001099 H-loop/switch region; other site 279010001100 TOBE domain; Region: TOBE_2; cl01440 279010001101 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 279010001102 dimer interface [polypeptide binding]; other site 279010001103 conserved gate region; other site 279010001104 putative PBP binding loops; other site 279010001105 ABC-ATPase subunit interface; other site 279010001106 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 279010001107 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 279010001108 dimer interface [polypeptide binding]; other site 279010001109 conserved gate region; other site 279010001110 putative PBP binding loops; other site 279010001111 ABC-ATPase subunit interface; other site 279010001112 peptide synthase; Provisional; Region: PRK12316 279010001113 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001114 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001115 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001116 peptide synthase; Provisional; Region: PRK12467 279010001117 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001118 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001119 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001120 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001121 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001122 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001123 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 279010001124 peptide synthase; Provisional; Region: PRK12467 279010001125 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001126 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001127 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001128 peptide synthase; Provisional; Region: PRK12467 279010001129 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001130 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001131 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001132 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001133 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001134 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001135 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 279010001136 peptide synthase; Provisional; Region: PRK12467 279010001137 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001138 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010001139 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010001140 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 279010001141 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 279010001142 EamA-like transporter family; Region: EamA; cl01037 279010001143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010001144 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 279010001145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010001146 DNA-binding site [nucleotide binding]; DNA binding site 279010001147 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 279010001148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010001149 homodimer interface [polypeptide binding]; other site 279010001150 catalytic residue [active] 279010001151 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 279010001152 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 279010001153 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 279010001154 Putative esterase; Region: Esterase; pfam00756 279010001155 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010001156 Predicted membrane protein [Function unknown]; Region: COG2364 279010001157 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010001158 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 279010001159 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 279010001160 Walker A/P-loop; other site 279010001161 ATP binding site [chemical binding]; other site 279010001162 Q-loop/lid; other site 279010001163 ABC transporter signature motif; other site 279010001164 Walker B; other site 279010001165 D-loop; other site 279010001166 H-loop/switch region; other site 279010001167 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 279010001168 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010001169 catalytic residue [active] 279010001170 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 279010001171 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 279010001172 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 279010001173 dimerization interface [polypeptide binding]; other site 279010001174 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010001175 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010001176 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 279010001177 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 279010001178 Walker A/P-loop; other site 279010001179 ATP binding site [chemical binding]; other site 279010001180 Q-loop/lid; other site 279010001181 ABC transporter signature motif; other site 279010001182 Walker B; other site 279010001183 D-loop; other site 279010001184 H-loop/switch region; other site 279010001185 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 279010001186 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 279010001187 dimer interface [polypeptide binding]; other site 279010001188 conserved gate region; other site 279010001189 putative PBP binding loops; other site 279010001190 ABC-ATPase subunit interface; other site 279010001191 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 279010001192 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 279010001193 substrate binding pocket [chemical binding]; other site 279010001194 membrane-bound complex binding site; other site 279010001195 hinge residues; other site 279010001196 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 279010001197 sensory histidine kinase AtoS; Provisional; Region: PRK11360 279010001198 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 279010001199 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 279010001200 Walker A motif; other site 279010001201 ATP binding site [chemical binding]; other site 279010001202 Walker B motif; other site 279010001203 arginine finger; other site 279010001204 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001205 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 279010001206 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 279010001207 inhibitor-cofactor binding pocket; inhibition site 279010001208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010001209 catalytic residue [active] 279010001210 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 279010001211 Amino acid permease; Region: AA_permease; cl00524 279010001212 Arginase family; Region: Arginase; cl00306 279010001213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010001214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001215 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 279010001216 dimerization interface [polypeptide binding]; other site 279010001217 aromatic acid decarboxylase; Validated; Region: PRK05920 279010001218 Flavoprotein; Region: Flavoprotein; cl08021 279010001219 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 279010001220 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010001221 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 279010001222 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 279010001223 ligand binding site [chemical binding]; other site 279010001224 Cache domain; Region: Cache_1; pfam02743 279010001225 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279010001226 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 279010001227 dimerization interface [polypeptide binding]; other site 279010001228 Histidine kinase; Region: His_kinase; pfam06580 279010001229 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 279010001230 ATP binding site [chemical binding]; other site 279010001231 Mg2+ binding site [ion binding]; other site 279010001232 G-X-G motif; other site 279010001233 Response regulator receiver domain; Region: Response_reg; pfam00072 279010001234 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 279010001235 active site 279010001236 phosphorylation site [posttranslational modification] 279010001237 intermolecular recognition site; other site 279010001238 dimerization interface [polypeptide binding]; other site 279010001239 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010001240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010001241 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 279010001242 Periplasmic xylose-binding component of the 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_ABC_xylose_binding; cd01538 279010001243 putative ligand binding site [chemical binding]; other site 279010001244 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 279010001245 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 279010001246 Walker A/P-loop; other site 279010001247 ATP binding site [chemical binding]; other site 279010001248 Q-loop/lid; other site 279010001249 ABC transporter signature motif; other site 279010001250 Walker B; other site 279010001251 D-loop; other site 279010001252 H-loop/switch region; other site 279010001253 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 279010001254 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 279010001255 TM-ABC transporter signature motif; other site 279010001256 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 279010001257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010001258 putative substrate translocation pore; other site 279010001259 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001260 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001261 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010001262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010001263 Coenzyme A binding pocket [chemical binding]; other site 279010001264 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 279010001265 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 279010001266 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 279010001267 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 279010001268 Phytase; Region: Phytase; pfam02333 279010001269 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 279010001270 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 279010001271 putative substrate translocation pore; other site 279010001272 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 279010001273 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 279010001274 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 279010001275 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 279010001276 Amino acid permease; Region: AA_permease; cl00524 279010001277 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 279010001278 DNA binding residues [nucleotide binding] 279010001279 dimer interface [polypeptide binding]; other site 279010001280 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010001281 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 279010001282 Walker A/P-loop; other site 279010001283 ATP binding site [chemical binding]; other site 279010001284 Q-loop/lid; other site 279010001285 ABC transporter signature motif; other site 279010001286 Walker B; other site 279010001287 D-loop; other site 279010001288 H-loop/switch region; other site 279010001289 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 279010001290 FtsX-like permease family; Region: FtsX; pfam02687 279010001291 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010001292 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 279010001293 active site 279010001294 phosphorylation site [posttranslational modification] 279010001295 intermolecular recognition site; other site 279010001296 dimerization interface [polypeptide binding]; other site 279010001297 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 279010001298 DNA binding site [nucleotide binding] 279010001299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279010001300 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 279010001301 dimerization interface [polypeptide binding]; other site 279010001302 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 279010001303 dimer interface [polypeptide binding]; other site 279010001304 phosphorylation site [posttranslational modification] 279010001305 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 279010001306 ATP binding site [chemical binding]; other site 279010001307 Mg2+ binding site [ion binding]; other site 279010001308 G-X-G motif; other site 279010001309 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 279010001310 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 279010001311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010001312 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010001313 aspartate kinase; Reviewed; Region: PRK09034 279010001314 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 279010001315 putative catalytic residues [active] 279010001316 putative nucleotide binding site [chemical binding]; other site 279010001317 putative aspartate binding site [chemical binding]; other site 279010001318 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 279010001319 allosteric regulatory residue; other site 279010001320 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 279010001321 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 279010001322 ABC-ATPase subunit interface; other site 279010001323 dimer interface [polypeptide binding]; other site 279010001324 putative PBP binding regions; other site 279010001325 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 279010001326 ABC-ATPase subunit interface; other site 279010001327 dimer interface [polypeptide binding]; other site 279010001328 putative PBP binding regions; other site 279010001329 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 279010001330 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 279010001331 Walker A/P-loop; other site 279010001332 ATP binding site [chemical binding]; other site 279010001333 Q-loop/lid; other site 279010001334 ABC transporter signature motif; other site 279010001335 Walker B; other site 279010001336 D-loop; other site 279010001337 H-loop/switch region; other site 279010001338 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 279010001339 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 279010001340 putative ligand binding residues [chemical binding]; other site 279010001341 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279010001342 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 279010001343 putative substrate translocation pore; other site 279010001344 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 279010001345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010001346 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001347 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 279010001348 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 279010001349 tetramer interface [polypeptide binding]; other site 279010001350 active site 279010001351 Mg2+/Mn2+ binding site [ion binding]; other site 279010001352 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 279010001353 dimer interface [polypeptide binding]; other site 279010001354 FMN binding site [chemical binding]; other site 279010001355 NADPH bind site [chemical binding]; other site 279010001356 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279010001357 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 279010001358 dimerization interface [polypeptide binding]; other site 279010001359 putative DNA binding site [nucleotide binding]; other site 279010001360 putative Zn2+ binding site [ion binding]; other site 279010001361 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 279010001362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010001363 DNA-binding site [nucleotide binding]; DNA binding site 279010001364 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 279010001365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010001366 homodimer interface [polypeptide binding]; other site 279010001367 catalytic residue [active] 279010001368 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 279010001369 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 279010001370 inhibitor-cofactor binding pocket; inhibition site 279010001371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010001372 catalytic residue [active] 279010001373 ethanolamine permease; Region: 2A0305; TIGR00908 279010001374 Amino acid permease; Region: AA_permease; cl00524 279010001375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010001376 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 279010001377 tetramerization interface [polypeptide binding]; other site 279010001378 NAD(P) binding site [chemical binding]; other site 279010001379 catalytic residues [active] 279010001380 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010001381 EamA-like transporter family; Region: EamA; cl01037 279010001382 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 279010001383 Copper resistance protein CopC; Region: CopC; cl01012 279010001384 Copper resistance protein D; Region: CopD; cl00563 279010001385 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001386 NosL; Region: NosL; cl01769 279010001387 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 279010001388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010001389 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 279010001390 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 279010001391 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279010001392 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 279010001393 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 279010001394 [4Fe-4S] binding site [ion binding]; other site 279010001395 molybdopterin cofactor binding site; other site 279010001396 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 279010001397 molybdopterin cofactor binding site; other site 279010001398 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 279010001399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010001400 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 279010001401 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 279010001402 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279010001403 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 279010001404 [2Fe-2S] cluster binding site [ion binding]; other site 279010001405 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 279010001406 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 279010001407 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010001408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010001409 DNA-binding site [nucleotide binding]; DNA binding site 279010001410 FCD domain; Region: FCD; cl11656 279010001411 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279010001412 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 279010001413 transmembrane helices; other site 279010001414 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 279010001415 homodimer interaction site [polypeptide binding]; other site 279010001416 cofactor binding site; other site 279010001417 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 279010001418 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001419 PRD domain; Region: PRD; cl15445 279010001420 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 279010001421 P-loop; other site 279010001422 active site 279010001423 phosphorylation site [posttranslational modification] 279010001424 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 279010001425 active site 279010001426 phosphorylation site [posttranslational modification] 279010001427 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 279010001428 P-loop; other site 279010001429 active site 279010001430 phosphorylation site [posttranslational modification] 279010001431 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 279010001432 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 279010001433 TPP-binding site [chemical binding]; other site 279010001434 dimer interface [polypeptide binding]; other site 279010001435 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 279010001436 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 279010001437 PYR/PP interface [polypeptide binding]; other site 279010001438 dimer interface [polypeptide binding]; other site 279010001439 TPP binding site [chemical binding]; other site 279010001440 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010001441 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 279010001442 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010001443 active site 279010001444 motif I; other site 279010001445 motif II; other site 279010001446 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 279010001447 LamB/YcsF family; Region: LamB_YcsF; cl00664 279010001448 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 279010001449 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 279010001450 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 279010001451 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 279010001452 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 279010001453 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001454 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279010001455 Bacterial transcriptional regulator; Region: IclR; pfam01614 279010001456 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 279010001457 active site 279010001458 catalytic triad [active] 279010001459 oxyanion hole [active] 279010001460 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 279010001461 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 279010001462 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 279010001463 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001464 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001465 PRD domain; Region: PRD; cl15445 279010001466 PRD domain; Region: PRD; cl15445 279010001467 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 279010001468 P-loop; other site 279010001469 active site 279010001470 phosphorylation site [posttranslational modification] 279010001471 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; cl00163 279010001472 short chain dehydrogenase; Provisional; Region: PRK06701 279010001473 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 279010001474 NAD binding site [chemical binding]; other site 279010001475 metal binding site [ion binding]; metal-binding site 279010001476 active site 279010001477 Cupin domain; Region: Cupin_2; cl09118 279010001478 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 279010001479 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 279010001480 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 279010001481 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 279010001482 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 279010001483 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 279010001484 Uncharacterized conserved protein [Function unknown]; Region: COG2128 279010001485 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001486 DNA topoisomerase III; Provisional; Region: PRK07726 279010001487 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 279010001488 active site 279010001489 putative interdomain interaction site [polypeptide binding]; other site 279010001490 putative metal-binding site [ion binding]; other site 279010001491 putative nucleotide binding site [chemical binding]; other site 279010001492 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 279010001493 domain I; other site 279010001494 DNA binding groove [nucleotide binding] 279010001495 phosphate binding site [ion binding]; other site 279010001496 domain II; other site 279010001497 domain III; other site 279010001498 nucleotide binding site [chemical binding]; other site 279010001499 catalytic site [active] 279010001500 domain IV; other site 279010001501 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 279010001502 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 279010001503 pyruvate oxidase; Provisional; Region: PRK08611 279010001504 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 279010001505 PYR/PP interface [polypeptide binding]; other site 279010001506 tetramer interface [polypeptide binding]; other site 279010001507 dimer interface [polypeptide binding]; other site 279010001508 TPP binding site [chemical binding]; other site 279010001509 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 279010001510 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 279010001511 TPP-binding site [chemical binding]; other site 279010001512 Chitin binding domain; Region: Chitin_bind_3; cl03871 279010001513 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001514 putative transposase OrfB; Reviewed; Region: PHA02517 279010001515 Integrase core domain; Region: rve; cl01316 279010001516 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001517 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010001518 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010001519 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 279010001520 aspartate ammonia-lyase; Provisional; Region: PRK14515 279010001521 Aspartase; Region: Aspartase; cd01357 279010001522 active sites [active] 279010001523 tetramer interface [polypeptide binding]; other site 279010001524 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 279010001525 glycosyltransferase, MGT family; Region: MGT; TIGR01426 279010001526 active site 279010001527 TDP-binding site; other site 279010001528 acceptor substrate-binding pocket; other site 279010001529 homodimer interface [polypeptide binding]; other site 279010001530 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 279010001531 EcsC protein family; Region: EcsC; pfam12787 279010001532 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 279010001533 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010001534 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010001535 Cupin domain; Region: Cupin_2; cl09118 279010001536 General stress protein [General function prediction only]; Region: GsiB; COG3729 279010001537 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 279010001538 Domain of unknown function DUF20; Region: UPF0118; cl00465 279010001539 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 279010001540 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010001541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010001542 Walker A/P-loop; other site 279010001543 ATP binding site [chemical binding]; other site 279010001544 Q-loop/lid; other site 279010001545 ABC transporter signature motif; other site 279010001546 Walker B; other site 279010001547 D-loop; other site 279010001548 H-loop/switch region; other site 279010001549 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010001550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010001551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279010001552 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279010001553 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 279010001554 catalytic residues [active] 279010001555 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 279010001556 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 279010001557 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010001558 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279010001559 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 279010001560 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010001561 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279010001562 Esterase/lipase [General function prediction only]; Region: COG1647 279010001563 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 279010001564 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 279010001565 ATP binding site [chemical binding]; other site 279010001566 Mg++ binding site [ion binding]; other site 279010001567 motif III; other site 279010001568 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 279010001569 nucleotide binding region [chemical binding]; other site 279010001570 ATP-binding site [chemical binding]; other site 279010001571 Bacterial membrane flanked domain; Region: DUF304; cl01348 279010001572 Predicted membrane protein [Function unknown]; Region: COG3428 279010001573 Bacterial membrane flanked domain; Region: DUF304; cl01348 279010001574 Bacterial membrane flanked domain; Region: DUF304; cl01348 279010001575 Bacterial membrane flanked domain; Region: DUF304; cl01348 279010001576 Rhomboid family; Region: Rhomboid; cl11446 279010001577 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 279010001578 alanine racemase; Region: alr; TIGR00492 279010001579 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 279010001580 active site 279010001581 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010001582 dimer interface [polypeptide binding]; other site 279010001583 substrate binding site [chemical binding]; other site 279010001584 catalytic residues [active] 279010001585 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 279010001586 PemK-like protein; Region: PemK; cl00995 279010001587 Rsbr N terminal; Region: Rsbr_N; pfam08678 279010001588 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 279010001589 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 279010001590 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 279010001591 ATP binding site [chemical binding]; other site 279010001592 Mg2+ binding site [ion binding]; other site 279010001593 G-X-G motif; other site 279010001594 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 279010001595 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 279010001596 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 279010001597 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 279010001598 anti sigma factor interaction site; other site 279010001599 regulatory phosphorylation site [posttranslational modification]; other site 279010001600 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 279010001601 ATP binding site [chemical binding]; other site 279010001602 Mg2+ binding site [ion binding]; other site 279010001603 G-X-G motif; other site 279010001604 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 279010001605 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010001606 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279010001607 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 279010001608 DNA binding residues [nucleotide binding] 279010001609 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 279010001610 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 279010001611 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 279010001612 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 279010001613 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 279010001614 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 279010001615 RNA binding site [nucleotide binding]; other site 279010001616 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 279010001617 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001618 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 279010001619 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 279010001620 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 279010001621 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 279010001622 SprT homologues; Region: SprT; cl01182 279010001623 EamA-like transporter family; Region: EamA; cl01037 279010001624 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010001625 EamA-like transporter family; Region: EamA; cl01037 279010001626 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 279010001627 non-specific DNA binding site [nucleotide binding]; other site 279010001628 salt bridge; other site 279010001629 sequence-specific DNA binding site [nucleotide binding]; other site 279010001630 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 279010001631 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 279010001632 putative di-iron ligands [ion binding]; other site 279010001633 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 279010001634 DNA-binding site [nucleotide binding]; DNA binding site 279010001635 RNA-binding motif; other site 279010001636 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279010001637 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 279010001638 NADP binding site [chemical binding]; other site 279010001639 dimer interface [polypeptide binding]; other site 279010001640 Predicted membrane protein [Function unknown]; Region: COG2364 279010001641 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010001642 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001643 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010001644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010001645 Coenzyme A binding pocket [chemical binding]; other site 279010001646 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 279010001647 Arginase family; Region: Arginase; cl00306 279010001648 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 279010001649 dimerization interface [polypeptide binding]; other site 279010001650 putative DNA binding site [nucleotide binding]; other site 279010001651 putative Zn2+ binding site [ion binding]; other site 279010001652 Uncharacterized conserved protein [Function unknown]; Region: COG1284 279010001653 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010001654 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010001655 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010001656 LysE type translocator; Region: LysE; cl00565 279010001657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010001658 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001659 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 279010001660 dimerization interface [polypeptide binding]; other site 279010001661 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 279010001662 putative substrate translocation pore; other site 279010001663 Putative cyclase; Region: Cyclase; cl00814 279010001664 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 279010001665 Amino acid permease; Region: AA_permease; cl00524 279010001666 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 279010001667 Yip1 domain; Region: Yip1; cl12048 279010001668 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 279010001669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010001670 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 279010001671 DNA binding residues [nucleotide binding] 279010001672 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 279010001673 OpgC protein; Region: OpgC_C; cl00792 279010001674 Acyltransferase family; Region: Acyl_transf_3; pfam01757 279010001675 yrhL-like subfamily of SGNH-hydrolases, 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_yrhL_like; cd01840 279010001676 catalytic triad [active] 279010001677 catalytic triad [active] 279010001678 oxyanion hole [active] 279010001679 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 279010001680 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 279010001681 putative substrate translocation pore; other site 279010001682 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 279010001683 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 279010001684 dimer interface [polypeptide binding]; other site 279010001685 phosphorylation site [posttranslational modification] 279010001686 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 279010001687 ATP binding site [chemical binding]; other site 279010001688 Mg2+ binding site [ion binding]; other site 279010001689 G-X-G motif; other site 279010001690 Response regulator receiver domain; Region: Response_reg; pfam00072 279010001691 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 279010001692 active site 279010001693 phosphorylation site [posttranslational modification] 279010001694 intermolecular recognition site; other site 279010001695 dimerization interface [polypeptide binding]; other site 279010001696 Histidine kinase; Region: His_kinase; pfam06580 279010001697 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 279010001698 ATP binding site [chemical binding]; other site 279010001699 Mg2+ binding site [ion binding]; other site 279010001700 G-X-G motif; other site 279010001701 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 279010001702 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 279010001703 active site 279010001704 phosphorylation site [posttranslational modification] 279010001705 intermolecular recognition site; other site 279010001706 dimerization interface [polypeptide binding]; other site 279010001707 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001708 Collagen binding domain; Region: Collagen_bind; pfam05737 279010001709 Collagen binding domain; Region: Collagen_bind; pfam05737 279010001710 Collagen binding domain; Region: Collagen_bind; pfam05737 279010001711 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001712 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001713 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001714 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001715 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001716 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001717 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001718 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cl14619 279010001719 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 279010001720 active site 279010001721 catalytic site [active] 279010001722 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 279010001723 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 279010001724 putative substrate translocation pore; other site 279010001725 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 279010001726 thiamine monophosphate kinase; Provisional; Region: PRK05731 279010001727 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 279010001728 ATP binding site [chemical binding]; other site 279010001729 dimerization interface [polypeptide binding]; other site 279010001730 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 279010001731 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 279010001732 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 279010001733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010001734 Coenzyme A binding pocket [chemical binding]; other site 279010001735 UGMP family protein; Validated; Region: PRK09604 279010001736 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 279010001737 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010001738 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 279010001739 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 279010001740 ABC transporter; Region: ABC_tran_2; pfam12848 279010001741 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 279010001742 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 279010001743 trimer interface [polypeptide binding]; other site 279010001744 dimer interface [polypeptide binding]; other site 279010001745 putative active site [active] 279010001746 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 279010001747 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 279010001748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010001749 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 279010001750 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 279010001751 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 279010001752 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 279010001753 oligomerisation interface [polypeptide binding]; other site 279010001754 mobile loop; other site 279010001755 roof hairpin; other site 279010001756 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 279010001757 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 279010001758 ring oligomerisation interface [polypeptide binding]; other site 279010001759 ATP/Mg binding site [chemical binding]; other site 279010001760 stacking interactions; other site 279010001761 hinge regions; other site 279010001762 YolD-like protein; Region: YolD; pfam08863 279010001763 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 279010001764 VanW like protein; Region: VanW; pfam04294 279010001765 Uncharacterised protein from bacillus cereus group; Region: YfmQ; pfam10787 279010001766 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010001767 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 279010001768 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010001769 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001770 phosphoenolpyruvate synthase; Validated; Region: PRK06241 279010001771 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 279010001772 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 279010001773 Protein of unknown function, DUF488; Region: DUF488; cl01246 279010001774 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 279010001775 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 279010001776 putative NAD(P) binding site [chemical binding]; other site 279010001777 active site 279010001778 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; cd00312 279010001779 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 279010001780 substrate binding pocket [chemical binding]; other site 279010001781 catalytic triad [active] 279010001782 D-galactonate transporter; Region: 2A0114; TIGR00893 279010001783 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 279010001784 putative substrate translocation pore; other site 279010001785 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 279010001786 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 279010001787 Domain of unknown function (DUF477); Region: DUF477; cl01535 279010001788 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 279010001789 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_5; cd03408 279010001790 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 279010001791 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279010001792 Predicted transcriptional regulators [Transcription]; Region: COG1378 279010001793 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001794 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 279010001795 C-terminal domain interface [polypeptide binding]; other site 279010001796 sugar binding site [chemical binding]; other site 279010001797 LysE type translocator; Region: LysE; cl00565 279010001798 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001799 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 279010001800 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010001801 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010001802 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010001803 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 279010001804 dimer interface [polypeptide binding]; other site 279010001805 Predicted transcriptional regulator [Transcription]; Region: COG2378 279010001806 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001807 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 279010001808 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 279010001809 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010001810 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 279010001811 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010001812 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 279010001813 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010001814 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010001815 DNA binding site [nucleotide binding] 279010001816 domain linker motif; other site 279010001817 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 279010001818 ligand binding site [chemical binding]; other site 279010001819 dimerization interface [polypeptide binding]; other site 279010001820 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 279010001821 homodimer interface [polypeptide binding]; other site 279010001822 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 279010001823 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010001824 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 279010001825 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 279010001826 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 279010001827 dimer interface [polypeptide binding]; other site 279010001828 conserved gate region; other site 279010001829 putative PBP binding loops; other site 279010001830 ABC-ATPase subunit interface; other site 279010001831 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 279010001832 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 279010001833 dimer interface [polypeptide binding]; other site 279010001834 conserved gate region; other site 279010001835 putative PBP binding loops; other site 279010001836 ABC-ATPase subunit interface; other site 279010001837 Predicted integral membrane protein [Function unknown]; Region: COG5521 279010001838 maltose phosphorylase; Provisional; Region: PRK13807 279010001839 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 279010001840 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 279010001841 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 279010001842 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 279010001843 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010001844 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010001845 beta-phosphoglucomutase; Region: bPGM; TIGR01990 279010001846 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 279010001847 motif II; other site 279010001848 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 279010001849 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 279010001850 active site 279010001851 HIGH motif; other site 279010001852 dimer interface [polypeptide binding]; other site 279010001853 KMSKS motif; other site 279010001854 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 279010001855 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010001856 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001857 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 279010001858 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 279010001859 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 279010001860 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 279010001861 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 279010001862 Catalytic site [active] 279010001863 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 279010001864 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 279010001865 NAD(P) binding site [chemical binding]; other site 279010001866 putative active site [active] 279010001867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010001868 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010001869 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010001870 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010001871 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 279010001872 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 279010001873 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 279010001874 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 279010001875 OpgC protein; Region: OpgC_C; cl00792 279010001876 Acyltransferase family; Region: Acyl_transf_3; pfam01757 279010001877 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 279010001878 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 279010001879 Cation efflux family; Region: Cation_efflux; cl00316 279010001880 MoxR-like ATPases [General function prediction only]; Region: COG0714 279010001881 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 279010001882 Walker A motif; other site 279010001883 ATP binding site [chemical binding]; other site 279010001884 Walker B motif; other site 279010001885 arginine finger; other site 279010001886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010001887 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 279010001888 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 279010001889 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 279010001890 GMP synthase; Reviewed; Region: guaA; PRK00074 279010001891 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 279010001892 AMP/PPi binding site [chemical binding]; other site 279010001893 candidate oxyanion hole; other site 279010001894 catalytic triad [active] 279010001895 potential glutamine specificity residues [chemical binding]; other site 279010001896 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 279010001897 ATP Binding subdomain [chemical binding]; other site 279010001898 Ligand Binding sites [chemical binding]; other site 279010001899 Dimerization subdomain; other site 279010001900 Permease family; Region: Xan_ur_permease; cl00967 279010001901 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010001902 AIR carboxylase; Region: AIRC; cl00310 279010001903 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 279010001904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010001905 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010001906 adenylosuccinate lyase; Provisional; Region: PRK07492 279010001907 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 279010001908 tetramer interface [polypeptide binding]; other site 279010001909 active site 279010001910 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 279010001911 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 279010001912 ATP binding site [chemical binding]; other site 279010001913 active site 279010001914 substrate binding site [chemical binding]; other site 279010001915 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 279010001916 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 279010001917 putative active site [active] 279010001918 catalytic triad [active] 279010001919 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 279010001920 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 279010001921 dimerization interface [polypeptide binding]; other site 279010001922 ATP binding site [chemical binding]; other site 279010001923 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 279010001924 dimerization interface [polypeptide binding]; other site 279010001925 ATP binding site [chemical binding]; other site 279010001926 amidophosphoribosyltransferase; Provisional; Region: PRK07631 279010001927 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 279010001928 active site 279010001929 tetramer interface [polypeptide binding]; other site 279010001930 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010001931 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010001932 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 279010001933 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 279010001934 dimerization interface [polypeptide binding]; other site 279010001935 putative ATP binding site [chemical binding]; other site 279010001936 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 279010001937 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 279010001938 active site 279010001939 substrate binding site [chemical binding]; other site 279010001940 cosubstrate binding site; other site 279010001941 catalytic site [active] 279010001942 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 279010001943 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 279010001944 purine monophosphate binding site [chemical binding]; other site 279010001945 dimer interface [polypeptide binding]; other site 279010001946 putative catalytic residues [active] 279010001947 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 279010001948 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 279010001949 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 279010001950 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 279010001951 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010001952 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 279010001953 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010001954 Cytochrome P450; Region: p450; cl12078 279010001955 ANTAR domain; Region: ANTAR; cl04297 279010001956 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 279010001957 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 279010001958 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 279010001959 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 279010001960 active site 279010001961 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 279010001962 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 279010001963 Trp repressor protein; Region: Trp_repressor; cl01121 279010001964 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 279010001965 substrate binding site [chemical binding]; other site 279010001966 putative active site [active] 279010001967 dimer interface [polypeptide binding]; other site 279010001968 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 279010001969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010001970 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 279010001971 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 279010001972 nucleotide binding pocket [chemical binding]; other site 279010001973 K-X-D-G motif; other site 279010001974 catalytic site [active] 279010001975 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 279010001976 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 279010001977 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 279010001978 Dimer interface [polypeptide binding]; other site 279010001979 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 279010001980 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010001981 DNA-binding site [nucleotide binding]; DNA binding site 279010001982 PRD domain; Region: PRD; cl15445 279010001983 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 279010001984 Protein of unknown function; Region: YhfT; pfam10797 279010001985 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 279010001986 active site 279010001987 substrate binding pocket [chemical binding]; other site 279010001988 homodimer interaction site [polypeptide binding]; other site 279010001989 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 279010001990 putative mutase; Provisional; Region: PRK12383 279010001991 Sulfatase; Region: Sulfatase; cl10460 279010001992 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 279010001993 dimer interface [polypeptide binding]; other site 279010001994 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 279010001995 active site 279010001996 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010001997 substrate binding site [chemical binding]; other site 279010001998 catalytic residue [active] 279010001999 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 279010002000 active site 279010002001 trimer interface [polypeptide binding]; other site 279010002002 allosteric site; other site 279010002003 active site lid [active] 279010002004 hexamer (dimer of trimers) interface [polypeptide binding]; other site 279010002005 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 279010002006 MgtC family; Region: MgtC; cl12207 279010002007 Sodium:solute symporter family; Region: SSF; cl00456 279010002008 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 279010002009 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 279010002010 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 279010002011 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; cl11426 279010002012 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 279010002013 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 279010002014 GatB domain; Region: GatB_Yqey; cl11497 279010002015 Protein of unknown function(DUF2089); Region: DUF2089; pfam09862 279010002016 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 279010002017 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010002018 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002019 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 279010002020 Protein export membrane protein; Region: SecD_SecF; cl14618 279010002021 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010002022 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010002023 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 279010002024 active site 279010002025 dimerization interface [polypeptide binding]; other site 279010002026 putative lipid kinase; Reviewed; Region: PRK13337 279010002027 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 279010002028 TRAM domain; Region: TRAM; cl01282 279010002029 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 279010002030 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 279010002031 S-adenosylmethionine binding site [chemical binding]; other site 279010002032 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 279010002033 HsdM N-terminal domain; Region: HsdM_N; pfam12161 279010002034 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 279010002035 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 279010002036 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 279010002037 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 279010002038 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 279010002039 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 279010002040 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 279010002041 ATP binding site [chemical binding]; other site 279010002042 putative Mg++ binding site [ion binding]; other site 279010002043 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 279010002044 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 279010002045 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; cl00083 279010002046 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 279010002047 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 279010002048 active site turn [active] 279010002049 phosphorylation site [posttranslational modification] 279010002050 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010002051 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 279010002052 HPr interaction site; other site 279010002053 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279010002054 active site 279010002055 phosphorylation site [posttranslational modification] 279010002056 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010002057 transcriptional antiterminator BglG; Provisional; Region: PRK09772 279010002058 CAT RNA binding domain; Region: CAT_RBD; cl03904 279010002059 PRD domain; Region: PRD; cl15445 279010002060 PRD domain; Region: PRD; cl15445 279010002061 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 279010002062 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; cl12011 279010002063 Domain of unknown function DUF28; Region: DUF28; cl00361 279010002064 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 279010002065 non-specific DNA binding site [nucleotide binding]; other site 279010002066 salt bridge; other site 279010002067 sequence-specific DNA binding site [nucleotide binding]; other site 279010002068 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 279010002069 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010002070 NAD(P) binding site [chemical binding]; other site 279010002071 catalytic residues [active] 279010002072 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010002073 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279010002074 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 279010002075 transmembrane helices; other site 279010002076 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010002077 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 279010002078 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002079 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 279010002080 ABC transporter; Region: ABC_tran_2; pfam12848 279010002081 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 279010002082 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 279010002083 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 279010002084 putative bacillithiol system thiol disulfide oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 279010002085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002086 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 279010002087 G1 box; other site 279010002088 GTP/Mg2+ binding site [chemical binding]; other site 279010002089 Switch I region; other site 279010002090 G2 box; other site 279010002091 Switch II region; other site 279010002092 G3 box; other site 279010002093 G4 box; other site 279010002094 G5 box; other site 279010002095 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 279010002096 Nucleoside recognition; Region: Gate; cl00486 279010002097 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 279010002098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002099 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 279010002100 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 279010002101 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 279010002102 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 279010002103 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 279010002104 inhibitor-cofactor binding pocket; inhibition site 279010002105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002106 catalytic residue [active] 279010002107 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 279010002108 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 279010002109 substrate-cofactor binding pocket; other site 279010002110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002111 catalytic residue [active] 279010002112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002114 biotin synthase; Validated; Region: PRK06256 279010002115 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 279010002116 FeS/SAM binding site; other site 279010002117 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 279010002118 Cytochrome P450; Region: p450; cl12078 279010002119 Ion transport protein; Region: Ion_trans; pfam00520 279010002120 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279010002121 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279010002122 DNA binding residues [nucleotide binding] 279010002123 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 279010002124 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 279010002125 putative substrate translocation pore; other site 279010002126 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010002127 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 279010002128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002129 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 279010002130 ABC transporter; Region: ABC_tran_2; pfam12848 279010002131 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 279010002132 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 279010002133 DEAD-like helicases superfamily; Region: DEXDc; smart00487 279010002134 ATP binding site [chemical binding]; other site 279010002135 Mg++ binding site [ion binding]; other site 279010002136 motif III; other site 279010002137 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 279010002138 nucleotide binding region [chemical binding]; other site 279010002139 ATP-binding site [chemical binding]; other site 279010002140 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 279010002141 Prostaglandin dehydrogenases; Region: PGDH; cd05288 279010002142 NAD(P) binding site [chemical binding]; other site 279010002143 substrate binding site [chemical binding]; other site 279010002144 dimer interface [polypeptide binding]; other site 279010002145 Protein of unknown function (DUF3212); Region: DUF3212; pfam11486 279010002146 Heat induced stress protein YflT; Region: YflT; pfam11181 279010002147 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279010002148 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; cd00625 279010002149 transmembrane helices; other site 279010002150 VanZ like family; Region: VanZ; cl01971 279010002151 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010002152 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010002153 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_5; cd06242 279010002154 putative active site [active] 279010002155 Zn binding site [ion binding]; other site 279010002156 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 279010002157 active site 279010002158 dimer interface [polypeptide binding]; other site 279010002159 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 279010002160 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 279010002161 dimerization interface [polypeptide binding]; other site 279010002162 putative DNA binding site [nucleotide binding]; other site 279010002163 putative Zn2+ binding site [ion binding]; other site 279010002164 Acylphosphatase; Region: Acylphosphatase; cl00551 279010002165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 279010002166 MOSC domain; Region: MOSC; pfam03473 279010002167 3-alpha domain; Region: 3-alpha; pfam03475 279010002168 Protein of unknown function (DUF2639); Region: DUF2639; pfam11121 279010002169 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 279010002170 active site 279010002171 Sulfatase; Region: Sulfatase; cl10460 279010002172 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 279010002173 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010002174 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 279010002175 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 279010002176 active site turn [active] 279010002177 phosphorylation site [posttranslational modification] 279010002178 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010002179 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 279010002180 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010002181 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 279010002182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010002183 DNA-binding site [nucleotide binding]; DNA binding site 279010002184 UTRA domain; Region: UTRA; cl01230 279010002185 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 279010002186 putative trimer interface [polypeptide binding]; other site 279010002187 putative CoA binding site [chemical binding]; other site 279010002188 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 279010002189 putative trimer interface [polypeptide binding]; other site 279010002190 putative active site [active] 279010002191 putative substrate binding site [chemical binding]; other site 279010002192 putative CoA binding site [chemical binding]; other site 279010002193 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 279010002194 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 279010002195 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 279010002196 inhibitor-cofactor binding pocket; inhibition site 279010002197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002198 catalytic residue [active] 279010002199 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 279010002200 putative trimer interface [polypeptide binding]; other site 279010002201 putative CoA binding site [chemical binding]; other site 279010002202 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279010002203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002204 NAD(P) binding site [chemical binding]; other site 279010002205 active site 279010002206 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 279010002207 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 279010002208 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 279010002209 active site 279010002210 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 279010002211 putative metal binding site; other site 279010002212 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 279010002213 binding surface 279010002214 TPR motif; other site 279010002215 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 279010002216 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 279010002217 inhibitor-cofactor binding pocket; inhibition site 279010002218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002219 catalytic residue [active] 279010002220 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279010002221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002222 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010002223 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 279010002224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002225 NAD(P) binding site [chemical binding]; other site 279010002226 active site 279010002227 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279010002228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002229 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 279010002230 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 279010002231 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002232 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 279010002233 FMN binding site [chemical binding]; other site 279010002234 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 279010002235 dimer interface [polypeptide binding]; other site 279010002236 FMN binding site [chemical binding]; other site 279010002237 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 279010002238 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 279010002239 active site 279010002240 metal binding site [ion binding]; metal-binding site 279010002241 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 279010002242 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 279010002243 active site 279010002244 metal binding site [ion binding]; metal-binding site 279010002245 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 279010002246 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 279010002247 proposed catalytic triad [active] 279010002248 conserved cys residue [active] 279010002249 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 279010002250 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010002251 Low molecular weight phosphatase family; Region: LMWPc; cd00115 279010002252 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 279010002253 active site 279010002254 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 279010002255 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 279010002256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010002257 putative substrate translocation pore; other site 279010002258 OsmC-like protein; Region: OsmC; cl00767 279010002259 calcium/proton exchanger (cax); Region: cax; TIGR00378 279010002260 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 279010002261 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 279010002262 Radical SAM superfamily; Region: Radical_SAM; pfam04055 279010002263 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; cl15367 279010002264 YfkB-like domain; Region: YfkB; pfam08756 279010002265 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 279010002266 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010002267 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 279010002268 dimer interface [polypeptide binding]; other site 279010002269 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 279010002270 active site 279010002271 metal binding site [ion binding]; metal-binding site 279010002272 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 279010002273 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 279010002274 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 279010002275 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279010002276 minor groove reading motif; other site 279010002277 helix-hairpin-helix signature motif; other site 279010002278 substrate binding pocket [chemical binding]; other site 279010002279 active site 279010002280 TRAM domain; Region: TRAM; cl01282 279010002281 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 279010002282 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 279010002283 S-adenosylmethionine binding site [chemical binding]; other site 279010002284 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010002285 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002286 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 279010002287 glycosyltransferase, MGT family; Region: MGT; TIGR01426 279010002288 active site 279010002289 TDP-binding site; other site 279010002290 acceptor substrate-binding pocket; other site 279010002291 homodimer interface [polypeptide binding]; other site 279010002292 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 279010002293 benzoate transport; Region: 2A0115; TIGR00895 279010002294 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 279010002295 putative substrate translocation pore; other site 279010002296 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 279010002297 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 279010002298 active site turn [active] 279010002299 phosphorylation site [posttranslational modification] 279010002300 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010002301 transcriptional antiterminator BglG; Provisional; Region: PRK09772 279010002302 CAT RNA binding domain; Region: CAT_RBD; cl03904 279010002303 PRD domain; Region: PRD; cl15445 279010002304 PRD domain; Region: PRD; cl15445 279010002305 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 279010002306 active site clefts [active] 279010002307 zinc binding site [ion binding]; other site 279010002308 dimer interface [polypeptide binding]; other site 279010002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 279010002310 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 279010002311 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 279010002312 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 279010002313 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 279010002314 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 279010002315 conserved cys residue [active] 279010002316 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 279010002317 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 279010002318 tetramer interface [polypeptide binding]; other site 279010002319 TPP-binding site [chemical binding]; other site 279010002320 heterodimer interface [polypeptide binding]; other site 279010002321 phosphorylation loop region [posttranslational modification] 279010002322 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279010002323 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 279010002324 alpha subunit interface [polypeptide binding]; other site 279010002325 TPP binding site [chemical binding]; other site 279010002326 heterodimer interface [polypeptide binding]; other site 279010002327 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010002328 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279010002329 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 279010002330 E3 interaction surface; other site 279010002331 lipoyl attachment site [posttranslational modification]; other site 279010002332 e3 binding domain; Region: E3_binding; pfam02817 279010002333 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 279010002334 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 279010002335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002337 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279010002338 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 279010002339 GAF domain; Region: GAF; cl00853 279010002340 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 279010002341 Walker A motif; other site 279010002342 ATP binding site [chemical binding]; other site 279010002343 Walker B motif; other site 279010002344 arginine finger; other site 279010002345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002346 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 279010002347 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 279010002348 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 279010002349 NAD binding site [chemical binding]; other site 279010002350 sugar binding site [chemical binding]; other site 279010002351 divalent metal binding site [ion binding]; other site 279010002352 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010002353 dimer interface [polypeptide binding]; other site 279010002354 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 279010002355 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 279010002356 putative active site [active] 279010002357 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 279010002358 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010002359 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 279010002360 active site turn [active] 279010002361 phosphorylation site [posttranslational modification] 279010002362 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 279010002363 S-adenosylmethionine binding site [chemical binding]; other site 279010002364 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 279010002365 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002366 DoxX; Region: DoxX; cl00976 279010002367 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 279010002368 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 279010002369 putative metal binding site [ion binding]; other site 279010002370 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 279010002371 active site 279010002372 metal binding site [ion binding]; metal-binding site 279010002373 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 279010002374 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 279010002375 active site 279010002376 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 279010002377 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 279010002378 inhibitor binding site; inhibition site 279010002379 active site 279010002380 Cupin domain; Region: Cupin_2; cl09118 279010002381 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010002382 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010002383 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 279010002384 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 279010002385 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010002386 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 279010002387 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 279010002388 nudix motif; other site 279010002389 Predicted integral membrane protein [Function unknown]; Region: COG0392 279010002390 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 279010002391 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 279010002392 phenazine biosynthesis protein PhzF family; Region: PhzF_family; TIGR00654 279010002393 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 279010002394 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 279010002395 putative FMN binding site [chemical binding]; other site 279010002396 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010002397 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 279010002398 TIGR01777 family protein; Region: yfcH 279010002399 putative NAD(P) binding site [chemical binding]; other site 279010002400 putative active site [active] 279010002401 RecX family; Region: RecX; cl00936 279010002402 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 279010002403 Small acid-soluble spore protein K family; Region: SspK; cl11509 279010002404 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 279010002405 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 279010002406 Ligand binding site; other site 279010002407 Putative Catalytic site; other site 279010002408 DXD motif; other site 279010002409 GtrA-like protein; Region: GtrA; cl00971 279010002410 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 279010002411 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 279010002412 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 279010002413 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279010002414 minor groove reading motif; other site 279010002415 helix-hairpin-helix signature motif; other site 279010002416 substrate binding pocket [chemical binding]; other site 279010002417 active site 279010002418 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 279010002419 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 279010002420 DNA binding and oxoG recognition site [nucleotide binding] 279010002421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279010002422 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 279010002423 putative NAD(P) binding site [chemical binding]; other site 279010002424 active site 279010002425 Protein of unknown function (DUF402); Region: DUF402; cl00979 279010002426 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010002427 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010002428 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 279010002429 Walker A/P-loop; other site 279010002430 ATP binding site [chemical binding]; other site 279010002431 Q-loop/lid; other site 279010002432 ABC transporter signature motif; other site 279010002433 Walker B; other site 279010002434 D-loop; other site 279010002435 H-loop/switch region; other site 279010002436 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 279010002437 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 279010002438 Walker A/P-loop; other site 279010002439 ATP binding site [chemical binding]; other site 279010002440 Q-loop/lid; other site 279010002441 ABC transporter signature motif; other site 279010002442 Walker B; other site 279010002443 D-loop; other site 279010002444 H-loop/switch region; other site 279010002445 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010002446 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 279010002447 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 279010002448 Walker A/P-loop; other site 279010002449 ATP binding site [chemical binding]; other site 279010002450 Q-loop/lid; other site 279010002451 ABC transporter signature motif; other site 279010002452 Walker B; other site 279010002453 D-loop; other site 279010002454 H-loop/switch region; other site 279010002455 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010002456 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 279010002457 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 279010002458 peptide binding site [polypeptide binding]; other site 279010002459 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 279010002460 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 279010002461 dimer interface [polypeptide binding]; other site 279010002462 conserved gate region; other site 279010002463 putative PBP binding loops; other site 279010002464 ABC-ATPase subunit interface; other site 279010002465 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 279010002466 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 279010002467 dimer interface [polypeptide binding]; other site 279010002468 conserved gate region; other site 279010002469 putative PBP binding loops; other site 279010002470 ABC-ATPase subunit interface; other site 279010002471 Predicted membrane protein [Function unknown]; Region: COG4129 279010002472 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 279010002473 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 279010002474 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 279010002475 inhibitor-cofactor binding pocket; inhibition site 279010002476 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002477 catalytic residue [active] 279010002478 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 279010002479 catalytic triad [active] 279010002480 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279010002481 metal binding site 2 [ion binding]; metal-binding site 279010002482 putative DNA binding helix; other site 279010002483 metal binding site 1 [ion binding]; metal-binding site 279010002484 dimer interface [polypeptide binding]; other site 279010002485 structural Zn2+ binding site [ion binding]; other site 279010002486 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 279010002487 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 279010002488 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010002489 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010002490 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010002491 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 279010002492 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 279010002493 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 279010002494 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 279010002495 active site 279010002496 catalytic residue [active] 279010002497 dimer interface [polypeptide binding]; other site 279010002498 ThiC family; Region: ThiC; cl08031 279010002499 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 279010002500 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 279010002501 Walker A/P-loop; other site 279010002502 ATP binding site [chemical binding]; other site 279010002503 Q-loop/lid; other site 279010002504 ABC transporter signature motif; other site 279010002505 Walker B; other site 279010002506 D-loop; other site 279010002507 H-loop/switch region; other site 279010002508 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 279010002509 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 279010002510 substrate binding pocket [chemical binding]; other site 279010002511 membrane-bound complex binding site; other site 279010002512 hinge residues; other site 279010002513 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 279010002514 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 279010002515 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 279010002516 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 279010002517 active site 279010002518 dimer interface [polypeptide binding]; other site 279010002519 non-prolyl cis peptide bond; other site 279010002520 insertion regions; other site 279010002521 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 279010002522 non-specific DNA binding site [nucleotide binding]; other site 279010002523 salt bridge; other site 279010002524 sequence-specific DNA binding site [nucleotide binding]; other site 279010002525 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 279010002526 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 279010002527 Walker A/P-loop; other site 279010002528 ATP binding site [chemical binding]; other site 279010002529 Q-loop/lid; other site 279010002530 ABC transporter signature motif; other site 279010002531 Walker B; other site 279010002532 D-loop; other site 279010002533 H-loop/switch region; other site 279010002534 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 279010002535 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 279010002536 B3/4 domain; Region: B3_4; cl11458 279010002537 iron-sulfur cluster binding protein, putative; Region: TIGR00276 279010002538 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 279010002539 4Fe-4S binding domain; Region: Fer4; cl02805 279010002540 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 279010002541 NlpC/P60 family; Region: NLPC_P60; cl11438 279010002542 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 279010002543 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 279010002544 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 279010002545 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 279010002546 similar to hypothetical protein 279010002547 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 279010002548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002549 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 279010002550 Uncharacterized conserved protein [Function unknown]; Region: COG2718 279010002551 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 279010002552 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 279010002553 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 279010002554 carboxyltransferase (CT) interaction site; other site 279010002555 biotinylation site [posttranslational modification]; other site 279010002556 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279010002557 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 279010002558 putative substrate translocation pore; other site 279010002559 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 279010002560 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010002561 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010002562 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 279010002563 Walker A/P-loop; other site 279010002564 ATP binding site [chemical binding]; other site 279010002565 Q-loop/lid; other site 279010002566 ABC transporter signature motif; other site 279010002567 Walker B; other site 279010002568 D-loop; other site 279010002569 H-loop/switch region; other site 279010002570 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010002571 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 279010002572 DNA-binding site [nucleotide binding]; DNA binding site 279010002573 RNA-binding motif; other site 279010002574 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 279010002575 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 279010002576 Walker A/P-loop; other site 279010002577 ATP binding site [chemical binding]; other site 279010002578 Q-loop/lid; other site 279010002579 ABC transporter signature motif; other site 279010002580 Walker B; other site 279010002581 D-loop; other site 279010002582 H-loop/switch region; other site 279010002583 NIL domain; Region: NIL; cl09633 279010002584 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 279010002585 dimer interface [polypeptide binding]; other site 279010002586 conserved gate region; other site 279010002587 ABC-ATPase subunit interface; other site 279010002588 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010002589 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 279010002590 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 279010002591 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 279010002592 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 279010002593 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 279010002594 Coat F domain; Region: Coat_F; cl02368 279010002595 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 279010002596 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 279010002597 putative active site [active] 279010002598 heme pocket [chemical binding]; other site 279010002599 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 279010002600 dimer interface [polypeptide binding]; other site 279010002601 phosphorylation site [posttranslational modification] 279010002602 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 279010002603 ATP binding site [chemical binding]; other site 279010002604 Mg2+ binding site [ion binding]; other site 279010002605 G-X-G motif; other site 279010002606 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 279010002607 generic binding surface II; other site 279010002608 generic binding surface I; other site 279010002609 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 279010002610 generic binding surface II; other site 279010002611 generic binding surface I; other site 279010002612 Staphylococcal nuclease homologues; Region: SNc; smart00318 279010002613 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 279010002614 Catalytic site; other site 279010002615 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 279010002616 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 279010002617 putative active site [active] 279010002618 putative metal binding site [ion binding]; other site 279010002619 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 279010002620 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 279010002621 active site 279010002622 catalytic site [active] 279010002623 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 279010002624 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 279010002625 active site 279010002626 FOG: CBS domain [General function prediction only]; Region: COG0517 279010002627 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 279010002628 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 279010002629 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 279010002630 motif II; other site 279010002631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010002632 Coenzyme A binding pocket [chemical binding]; other site 279010002633 Predicted amidohydrolase [General function prediction only]; Region: COG0388 279010002634 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 279010002635 putative active site [active] 279010002636 catalytic triad [active] 279010002637 putative dimer interface [polypeptide binding]; other site 279010002638 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010002639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002640 Walker A/P-loop; other site 279010002641 ATP binding site [chemical binding]; other site 279010002642 Q-loop/lid; other site 279010002643 ABC transporter signature motif; other site 279010002644 Walker B; other site 279010002645 D-loop; other site 279010002646 H-loop/switch region; other site 279010002647 ABC transporter; Region: ABC_tran_2; pfam12848 279010002648 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 279010002649 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 279010002650 Membrane transport protein; Region: Mem_trans; cl09117 279010002651 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 279010002652 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279010002653 NAD(P) binding site [chemical binding]; other site 279010002654 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 279010002655 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; cd00333 279010002656 amphipathic channel; other site 279010002657 Asn-Pro-Ala signature motifs; other site 279010002658 glycerol kinase; Provisional; Region: glpK; PRK00047 279010002659 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 279010002660 N- and C-terminal domain interface [polypeptide binding]; other site 279010002661 active site 279010002662 MgATP binding site [chemical binding]; other site 279010002663 catalytic site [active] 279010002664 metal binding site [ion binding]; metal-binding site 279010002665 glycerol binding site [chemical binding]; other site 279010002666 homotetramer interface [polypeptide binding]; other site 279010002667 homodimer interface [polypeptide binding]; other site 279010002668 FBP binding site [chemical binding]; other site 279010002669 protein IIAGlc interface [polypeptide binding]; other site 279010002670 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 279010002671 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 279010002672 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 279010002673 active site 279010002674 substrate binding site [chemical binding]; other site 279010002675 metal binding site [ion binding]; metal-binding site 279010002676 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 279010002677 non-specific DNA binding site [nucleotide binding]; other site 279010002678 salt bridge; other site 279010002679 sequence-specific DNA binding site [nucleotide binding]; other site 279010002680 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 279010002681 GAF domain; Region: GAF; cl00853 279010002682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279010002683 Histidine kinase; Region: HisKA_3; pfam07730 279010002684 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 279010002685 ATP binding site [chemical binding]; other site 279010002686 Mg2+ binding site [ion binding]; other site 279010002687 G-X-G motif; other site 279010002688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010002689 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 279010002690 active site 279010002691 phosphorylation site [posttranslational modification] 279010002692 intermolecular recognition site; other site 279010002693 dimerization interface [polypeptide binding]; other site 279010002694 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 279010002695 DNA binding residues [nucleotide binding] 279010002696 dimerization interface [polypeptide binding]; other site 279010002697 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010002698 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002699 Rrf2 family protein; Region: rrf2_super; TIGR00738 279010002700 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 279010002701 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 279010002702 heme-binding site [chemical binding]; other site 279010002703 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 279010002704 FAD binding pocket [chemical binding]; other site 279010002705 FAD binding motif [chemical binding]; other site 279010002706 phosphate binding motif [ion binding]; other site 279010002707 beta-alpha-beta structure motif; other site 279010002708 NAD binding pocket [chemical binding]; other site 279010002709 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 279010002710 SpoVR like protein; Region: SpoVR; pfam04293 279010002711 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 279010002712 putative peptidoglycan binding site; other site 279010002713 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 279010002714 putative peptidoglycan binding site; other site 279010002715 NlpC/P60 family; Region: NLPC_P60; cl11438 279010002716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010002717 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002718 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 279010002719 dimerization interface [polypeptide binding]; other site 279010002720 Bacillus subtilis (Bs) citrate synthase CS-I_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: BsCS-I_like; cd06109 279010002721 dimer interface [polypeptide binding]; other site 279010002722 Citrate synthase; Region: Citrate_synt; pfam00285 279010002723 active site 279010002724 citrylCoA binding site [chemical binding]; other site 279010002725 oxalacetate/citrate binding site [chemical binding]; other site 279010002726 coenzyme A binding site [chemical binding]; other site 279010002727 catalytic triad [active] 279010002728 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 279010002729 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 279010002730 short chain dehydrogenase; Provisional; Region: PRK06701 279010002731 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 279010002732 NAD binding site [chemical binding]; other site 279010002733 metal binding site [ion binding]; metal-binding site 279010002734 active site 279010002735 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 279010002736 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 279010002737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010002738 catalytic residue [active] 279010002739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010002740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010002741 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010002742 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 279010002743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010002744 DNA-binding site [nucleotide binding]; DNA binding site 279010002745 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 279010002746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002747 homodimer interface [polypeptide binding]; other site 279010002748 catalytic residue [active] 279010002749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010002750 Coenzyme A binding pocket [chemical binding]; other site 279010002751 RNA polymerase sigma factor SigM; Provisional; Region: PRK09644 279010002752 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010002753 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 279010002754 DNA binding residues [nucleotide binding] 279010002755 Cupin domain; Region: Cupin_2; cl09118 279010002756 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 279010002757 putative acyl-acceptor binding pocket; other site 279010002758 Protein of unknown function (DUF805); Region: DUF805; cl01224 279010002759 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 279010002760 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 279010002761 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 279010002762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010002763 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002764 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279010002765 Domain of unknown function DUF21; Region: DUF21; pfam01595 279010002766 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 279010002767 Transporter associated domain; Region: CorC_HlyC; cl08393 279010002768 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg4; cd04779 279010002769 DNA binding residues [nucleotide binding] 279010002770 putative dimer interface [polypeptide binding]; other site 279010002771 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279010002772 Domain of unknown function DUF21; Region: DUF21; pfam01595 279010002773 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 279010002774 Transporter associated domain; Region: CorC_HlyC; cl08393 279010002775 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 279010002776 active site 279010002777 metal binding site [ion binding]; metal-binding site 279010002778 CrcB-like protein; Region: CRCB; cl09114 279010002779 CrcB-like protein; Region: CRCB; cl09114 279010002780 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 279010002781 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 279010002782 active site 279010002783 catalytic site [active] 279010002784 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 279010002785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 279010002786 NAD-dependent deacetylase; Provisional; Region: PRK14138 279010002787 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 279010002788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010002789 Coenzyme A binding pocket [chemical binding]; other site 279010002790 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 279010002791 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010002792 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 279010002793 homodimer interface [polypeptide binding]; other site 279010002794 substrate-cofactor binding pocket; other site 279010002795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002796 Aminotransferase class IV; Region: Aminotran_4; pfam01063 279010002797 catalytic residue [active] 279010002798 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 279010002799 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010002800 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 279010002801 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 279010002802 active site 279010002803 catalytic residues [active] 279010002804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002805 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 279010002806 YcaO-like family; Region: YcaO; cl09146 279010002807 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 279010002808 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 279010002809 Ligand Binding Site [chemical binding]; other site 279010002810 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 279010002811 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010002812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010002813 Walker A/P-loop; other site 279010002814 ATP binding site [chemical binding]; other site 279010002815 Q-loop/lid; other site 279010002816 ABC transporter signature motif; other site 279010002817 Walker B; other site 279010002818 D-loop; other site 279010002819 H-loop/switch region; other site 279010002820 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 279010002821 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010002822 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010002823 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 279010002824 Walker A/P-loop; other site 279010002825 ATP binding site [chemical binding]; other site 279010002826 Q-loop/lid; other site 279010002827 ABC transporter signature motif; other site 279010002828 Walker B; other site 279010002829 D-loop; other site 279010002830 H-loop/switch region; other site 279010002831 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 279010002832 NAD binding site [chemical binding]; other site 279010002833 substrate binding site [chemical binding]; other site 279010002834 putative active site [active] 279010002835 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 279010002836 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 279010002837 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 279010002838 Walker A/P-loop; other site 279010002839 ATP binding site [chemical binding]; other site 279010002840 Q-loop/lid; other site 279010002841 ABC transporter signature motif; other site 279010002842 Walker B; other site 279010002843 D-loop; other site 279010002844 H-loop/switch region; other site 279010002845 TOBE domain; Region: TOBE_2; cl01440 279010002846 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 279010002847 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 279010002848 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010002849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 279010002850 Protein of unknown function (DUF964); Region: DUF964; cl01483 279010002851 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010002852 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 279010002853 active site 279010002854 motif I; other site 279010002855 motif II; other site 279010002856 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010002857 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 279010002858 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 279010002859 FeS/SAM binding site; other site 279010002860 enoyl-CoA hydratase; Provisional; Region: PRK07659 279010002861 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 279010002862 substrate binding site [chemical binding]; other site 279010002863 oxyanion hole (OAH) forming residues; other site 279010002864 trimer interface [polypeptide binding]; other site 279010002865 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 279010002866 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 279010002867 Walker A/P-loop; other site 279010002868 ATP binding site [chemical binding]; other site 279010002869 Q-loop/lid; other site 279010002870 ABC transporter signature motif; other site 279010002871 Walker B; other site 279010002872 D-loop; other site 279010002873 H-loop/switch region; other site 279010002874 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 279010002875 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 279010002876 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 279010002877 active site 279010002878 metal binding site [ion binding]; metal-binding site 279010002879 DNA binding site [nucleotide binding] 279010002880 Uncharacterized conserved protein [Function unknown]; Region: COG4717 279010002881 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 279010002882 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 279010002883 generic binding surface II; other site 279010002884 generic binding surface I; other site 279010002885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279010002886 Zn2+ binding site [ion binding]; other site 279010002887 Mg2+ binding site [ion binding]; other site 279010002888 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 279010002889 PPIC-type PPIASE domain; Region: Rotamase; cl08278 279010002890 similar to hypothetical protein; BLi01073 279010002891 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 279010002892 Protein of unknown function (DUF1878); Region: DUF1878; pfam08963 279010002893 transcriptional regulator Hpr; Provisional; Region: PRK13777 279010002894 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002895 YtxH-like protein; Region: YtxH; cl02079 279010002896 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 279010002897 Aminotransferase class-V; Region: Aminotran_5; pfam00266 279010002898 homodimer interface [polypeptide binding]; other site 279010002899 substrate-cofactor binding pocket; other site 279010002900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010002901 catalytic residue [active] 279010002902 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 279010002903 HIT family signature motif; other site 279010002904 catalytic residue [active] 279010002905 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 279010002906 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 279010002907 Walker A/P-loop; other site 279010002908 ATP binding site [chemical binding]; other site 279010002909 Q-loop/lid; other site 279010002910 ABC transporter signature motif; other site 279010002911 Walker B; other site 279010002912 D-loop; other site 279010002913 H-loop/switch region; other site 279010002914 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 279010002915 EcsC protein family; Region: EcsC; pfam12787 279010002916 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279010002917 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 279010002918 metal binding site [ion binding]; metal-binding site 279010002919 dimer interface [polypeptide binding]; other site 279010002920 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279010002921 Transglycosylase; Region: Transgly; cl07896 279010002922 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 279010002923 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010002924 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 279010002925 substrate binding site [chemical binding]; other site 279010002926 active site 279010002927 ferrochelatase; Provisional; Region: PRK12435 279010002928 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 279010002929 C-terminal domain interface [polypeptide binding]; other site 279010002930 active site 279010002931 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 279010002932 active site 279010002933 N-terminal domain interface [polypeptide binding]; other site 279010002934 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 279010002935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010002937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010002938 Predicted membrane protein [Function unknown]; Region: COG1511 279010002939 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 279010002940 HemX; Region: HemX; cl14667 279010002941 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 279010002942 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010002943 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 279010002944 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 279010002945 dimer interface [polypeptide binding]; other site 279010002946 active site 279010002947 CoA binding pocket [chemical binding]; other site 279010002948 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 279010002949 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 279010002950 putative oligomer interface [polypeptide binding]; other site 279010002951 putative active site [active] 279010002952 metal binding site [ion binding]; metal-binding site 279010002953 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 279010002954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010002955 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 279010002956 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 279010002957 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 279010002958 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 279010002959 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010002960 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279010002961 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 279010002962 non-specific DNA binding site [nucleotide binding]; other site 279010002963 salt bridge; other site 279010002964 sequence-specific DNA binding site [nucleotide binding]; other site 279010002965 Cupin domain; Region: Cupin_2; cl09118 279010002966 AzlC protein; Region: AzlC; cl00570 279010002967 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 279010002968 Peptidase family M48; Region: Peptidase_M48; cl12018 279010002969 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 279010002970 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 279010002971 active site 279010002972 catalytic residues [active] 279010002973 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010002974 EamA-like transporter family; Region: EamA; cl01037 279010002975 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 279010002976 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 279010002977 siderophore binding site; other site 279010002978 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 279010002979 ABC-ATPase subunit interface; other site 279010002980 dimer interface [polypeptide binding]; other site 279010002981 putative PBP binding regions; other site 279010002982 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 279010002983 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 279010002984 ABC-ATPase subunit interface; other site 279010002985 dimer interface [polypeptide binding]; other site 279010002986 putative PBP binding regions; other site 279010002987 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 279010002988 catalytic core [active] 279010002989 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 279010002990 heme-binding site [chemical binding]; other site 279010002991 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010002992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002993 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279010002994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010002995 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 279010002996 [2Fe-2S] cluster binding site [ion binding]; other site 279010002997 short chain dehydrogenase; Provisional; Region: PRK06701 279010002998 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 279010002999 NAD binding site [chemical binding]; other site 279010003000 metal binding site [ion binding]; metal-binding site 279010003001 active site 279010003002 IDEAL domain; Region: IDEAL; cl07452 279010003003 ComK protein; Region: ComK; cl11560 279010003004 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010003005 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 279010003006 Catalytic site [active] 279010003007 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 279010003008 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 279010003009 active site 279010003010 catalytic residues [active] 279010003011 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 279010003012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010003013 putative substrate translocation pore; other site 279010003014 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 279010003015 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 279010003016 allantoinase; Provisional; Region: PRK08044 279010003017 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 279010003018 active site 279010003019 allantoate amidohydrolase; Region: AllC; TIGR03176 279010003020 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 279010003021 active site 279010003022 metal binding site [ion binding]; metal-binding site 279010003023 dimer interface [polypeptide binding]; other site 279010003024 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 279010003025 Cupin domain; Region: Cupin_2; cl09118 279010003026 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 279010003027 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 279010003028 membrane protein FdrA; Validated; Region: PRK06091 279010003029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003030 CoA-ligase; Region: Ligase_CoA; pfam00549 279010003031 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 279010003032 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 279010003033 carbamate kinase; Reviewed; Region: PRK12686 279010003034 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 279010003035 putative substrate binding site [chemical binding]; other site 279010003036 nucleotide binding site [chemical binding]; other site 279010003037 nucleotide binding site [chemical binding]; other site 279010003038 homodimer interface [polypeptide binding]; other site 279010003039 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 279010003040 D-galactonate transporter; Region: 2A0114; TIGR00893 279010003041 putative substrate translocation pore; other site 279010003042 Protein of unknown function (DUF2690); Region: DUF2690; pfam10901 279010003043 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 279010003044 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010003045 DNA binding site [nucleotide binding] 279010003046 domain linker motif; other site 279010003047 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 279010003048 putative dimerization interface [polypeptide binding]; other site 279010003049 putative ligand binding site [chemical binding]; other site 279010003050 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010003051 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 279010003052 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 279010003053 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 279010003054 dimer interface [polypeptide binding]; other site 279010003055 conserved gate region; other site 279010003056 putative PBP binding loops; other site 279010003057 ABC-ATPase subunit interface; other site 279010003058 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010003059 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 279010003060 dimer interface [polypeptide binding]; other site 279010003061 conserved gate region; other site 279010003062 putative PBP binding loops; other site 279010003063 ABC-ATPase subunit interface; other site 279010003064 alpha-galactosidase; Provisional; Region: PRK15076 279010003065 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 279010003066 NAD binding site [chemical binding]; other site 279010003067 sugar binding site [chemical binding]; other site 279010003068 divalent metal binding site [ion binding]; other site 279010003069 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010003070 dimer interface [polypeptide binding]; other site 279010003071 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 279010003072 Putative ammonia monooxygenase; Region: AmoA; pfam05145 279010003073 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 279010003074 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 279010003075 CotJB protein; Region: CotJB; pfam12652 279010003076 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 279010003077 dimanganese center [ion binding]; other site 279010003078 AMP-binding domain protein; Validated; Region: PRK08315 279010003079 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010003080 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 279010003081 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 279010003082 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010003083 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 279010003084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279010003085 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 279010003086 dimerization interface [polypeptide binding]; other site 279010003087 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 279010003088 dimer interface [polypeptide binding]; other site 279010003089 phosphorylation site [posttranslational modification] 279010003090 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 279010003091 ATP binding site [chemical binding]; other site 279010003092 Mg2+ binding site [ion binding]; other site 279010003093 G-X-G motif; other site 279010003094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010003095 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 279010003096 active site 279010003097 phosphorylation site [posttranslational modification] 279010003098 intermolecular recognition site; other site 279010003099 dimerization interface [polypeptide binding]; other site 279010003100 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 279010003101 DNA binding site [nucleotide binding] 279010003102 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 279010003103 dinuclear metal binding motif [ion binding]; other site 279010003104 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 279010003105 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 279010003106 dimerization interface [polypeptide binding]; other site 279010003107 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 279010003108 dimer interface [polypeptide binding]; other site 279010003109 conserved gate region; other site 279010003110 putative PBP binding loops; other site 279010003111 ABC-ATPase subunit interface; other site 279010003112 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 279010003113 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 279010003114 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 279010003115 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 279010003116 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 279010003117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010003118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010003119 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 279010003120 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010003121 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 279010003122 active site 279010003123 metal binding site [ion binding]; metal-binding site 279010003124 DNA binding site [nucleotide binding] 279010003125 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 279010003126 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 279010003127 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 279010003128 Walker A/P-loop; other site 279010003129 ATP binding site [chemical binding]; other site 279010003130 Q-loop/lid; other site 279010003131 ABC transporter signature motif; other site 279010003132 Walker B; other site 279010003133 D-loop; other site 279010003134 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 279010003135 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 279010003136 ABC transporter signature motif; other site 279010003137 Walker B; other site 279010003138 D-loop; other site 279010003139 H-loop/switch region; other site 279010003140 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 279010003141 Protein of unknown function (DUF2772); Region: DUF2772; pfam10970 279010003142 Spore germination protein GerPC; Region: GerPC; pfam10737 279010003143 Protein of unknown function (DUF2539); Region: DUF2539; pfam10803 279010003144 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 279010003145 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 279010003146 CotH protein; Region: CotH; pfam08757 279010003147 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 279010003148 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279010003149 GTPase RsgA; Reviewed; Region: PRK01889 279010003150 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 279010003151 GTPase/OB domain interface [polypeptide binding]; other site 279010003152 GTPase/Zn-binding domain interface [polypeptide binding]; other site 279010003153 GTP/Mg2+ binding site [chemical binding]; other site 279010003154 G4 box; other site 279010003155 G5 box; other site 279010003156 G1 box; other site 279010003157 Switch I region; other site 279010003158 G2 box; other site 279010003159 G3 box; other site 279010003160 Switch II region; other site 279010003161 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 279010003162 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 279010003163 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 279010003164 active site 279010003165 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 279010003166 dimer interface [polypeptide binding]; other site 279010003167 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 279010003168 Ligand Binding Site [chemical binding]; other site 279010003169 Molecular Tunnel; other site 279010003170 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 279010003171 Nitrogen regulatory protein P-II; Region: P-II; cl00412 279010003172 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 279010003173 MatE; Region: MatE; cl10513 279010003174 MatE; Region: MatE; cl10513 279010003175 Cupin domain; Region: Cupin_2; cl09118 279010003176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010003177 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010003178 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010003179 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010003180 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010003181 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010003182 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010003183 DNA binding site [nucleotide binding] 279010003184 domain linker motif; other site 279010003185 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 279010003186 dimerization interface [polypeptide binding]; other site 279010003187 ligand binding site [chemical binding]; other site 279010003188 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279010003189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003190 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010003191 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 279010003192 homodimer interface [polypeptide binding]; other site 279010003193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003194 catalytic residue [active] 279010003195 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 279010003196 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 279010003197 inhibitor-cofactor binding pocket; inhibition site 279010003198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003199 catalytic residue [active] 279010003200 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 279010003201 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 279010003202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003203 catalytic residue [active] 279010003204 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 279010003205 IucA / IucC family; Region: IucA_IucC; pfam04183 279010003206 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 279010003207 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010003208 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 279010003209 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 279010003210 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 279010003211 IucA / IucC family; Region: IucA_IucC; pfam04183 279010003212 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 279010003213 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010003214 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010003215 human dehydrogenase/reductase (SDR family) member 1 (DHRS1) -like, classical (c) SDRs; Region: DHRS1-like_SDR_c; cd09763 279010003216 NAD(P) binding site [chemical binding]; other site 279010003217 putative dimer interface [polypeptide binding]; other site 279010003218 active site 279010003219 Predicted transcriptional regulator [Transcription]; Region: COG2378 279010003220 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003221 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 279010003222 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 279010003223 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 279010003224 substrate binding pocket [chemical binding]; other site 279010003225 dimer interface [polypeptide binding]; other site 279010003226 inhibitor binding site; inhibition site 279010003227 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 279010003228 B12 binding site [chemical binding]; other site 279010003229 cobalt ligand [ion binding]; other site 279010003230 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 279010003231 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 279010003232 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 279010003233 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 279010003234 FAD binding site [chemical binding]; other site 279010003235 Protein of unknown function (DUF520); Region: DUF520; cl00723 279010003236 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 279010003237 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 279010003238 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 279010003239 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 279010003240 Uncharacterized conserved protein [Function unknown]; Region: COG1284 279010003241 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010003242 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010003243 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010003244 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 279010003245 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 279010003246 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 279010003247 active site 279010003248 Protein of unknown function (DUF3813); Region: DUF3813; pfam12758 279010003249 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010003250 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 279010003251 motif II; other site 279010003252 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010003253 esterase; Provisional; Region: PRK10566 279010003254 Domain of unknown function DUF59; Region: DUF59; cl00941 279010003255 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 279010003256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003257 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 279010003258 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 279010003259 heterotetramer interface [polypeptide binding]; other site 279010003260 active site pocket [active] 279010003261 cleavage site 279010003262 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 279010003263 nucleotide binding site [chemical binding]; other site 279010003264 N-acetyl-L-glutamate binding site [chemical binding]; other site 279010003265 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 279010003266 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 279010003267 inhibitor-cofactor binding pocket; inhibition site 279010003268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003269 catalytic residue [active] 279010003270 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 279010003271 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 279010003272 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 279010003273 catalytic site [active] 279010003274 subunit interface [polypeptide binding]; other site 279010003275 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 279010003276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010003277 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010003278 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010003279 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010003280 ornithine carbamoyltransferase; Provisional; Region: PRK00779 279010003281 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 279010003282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003283 Bacitracin resistance protein BacA; Region: BacA; cl00858 279010003284 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 279010003285 LytB protein; Region: LYTB; cl00507 279010003286 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 279010003287 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 279010003288 putative ligand binding site [chemical binding]; other site 279010003289 ComZ; Region: ComZ; pfam10815 279010003290 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 279010003291 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 279010003292 dimer interface [polypeptide binding]; other site 279010003293 active site 279010003294 CoA binding pocket [chemical binding]; other site 279010003295 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 279010003296 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 279010003297 dimer interface [polypeptide binding]; other site 279010003298 active site 279010003299 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 279010003300 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 279010003301 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 279010003302 Walker A/P-loop; other site 279010003303 ATP binding site [chemical binding]; other site 279010003304 Q-loop/lid; other site 279010003305 ABC transporter signature motif; other site 279010003306 Walker B; other site 279010003307 D-loop; other site 279010003308 H-loop/switch region; other site 279010003309 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003310 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 279010003311 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 279010003312 Walker A/P-loop; other site 279010003313 ATP binding site [chemical binding]; other site 279010003314 Q-loop/lid; other site 279010003315 ABC transporter signature motif; other site 279010003316 Walker B; other site 279010003317 D-loop; other site 279010003318 H-loop/switch region; other site 279010003319 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003320 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 279010003321 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 279010003322 peptide binding site [polypeptide binding]; other site 279010003323 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 279010003324 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 279010003325 dimer interface [polypeptide binding]; other site 279010003326 conserved gate region; other site 279010003327 putative PBP binding loops; other site 279010003328 ABC-ATPase subunit interface; other site 279010003329 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 279010003330 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 279010003331 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 279010003332 dimer interface [polypeptide binding]; other site 279010003333 conserved gate region; other site 279010003334 putative PBP binding loops; other site 279010003335 ABC-ATPase subunit interface; other site 279010003336 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 279010003337 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010003338 putative substrate translocation pore; other site 279010003339 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 279010003340 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 279010003341 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 279010003342 active site 279010003343 HIGH motif; other site 279010003344 dimer interface [polypeptide binding]; other site 279010003345 KMSKS motif; other site 279010003346 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 279010003347 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 279010003348 peptide binding site [polypeptide binding]; other site 279010003349 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 279010003350 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 279010003351 dimer interface [polypeptide binding]; other site 279010003352 conserved gate region; other site 279010003353 putative PBP binding loops; other site 279010003354 ABC-ATPase subunit interface; other site 279010003355 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 279010003356 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 279010003357 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 279010003358 dimer interface [polypeptide binding]; other site 279010003359 conserved gate region; other site 279010003360 putative PBP binding loops; other site 279010003361 ABC-ATPase subunit interface; other site 279010003362 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 279010003363 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 279010003364 Walker A/P-loop; other site 279010003365 ATP binding site [chemical binding]; other site 279010003366 Q-loop/lid; other site 279010003367 ABC transporter signature motif; other site 279010003368 Walker B; other site 279010003369 D-loop; other site 279010003370 H-loop/switch region; other site 279010003371 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003372 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 279010003373 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 279010003374 Walker A/P-loop; other site 279010003375 ATP binding site [chemical binding]; other site 279010003376 Q-loop/lid; other site 279010003377 ABC transporter signature motif; other site 279010003378 Walker B; other site 279010003379 D-loop; other site 279010003380 H-loop/switch region; other site 279010003381 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003382 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 279010003383 ArsC family; Region: ArsC; pfam03960 279010003384 putative catalytic residues [active] 279010003385 thiol/disulfide switch; other site 279010003386 Integral membrane protein TerC family; Region: TerC; cl10468 279010003387 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 279010003388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 279010003389 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010003390 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 279010003391 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 279010003392 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 279010003393 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 279010003394 active site 279010003395 phosphorylation site [posttranslational modification] 279010003396 intermolecular recognition site; other site 279010003397 dimerization interface [polypeptide binding]; other site 279010003398 Transcriptional regulator; Region: CitT; pfam12431 279010003399 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 279010003400 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 279010003401 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 279010003402 ATP binding site [chemical binding]; other site 279010003403 Mg2+ binding site [ion binding]; other site 279010003404 G-X-G motif; other site 279010003405 Competence protein CoiA-like family; Region: CoiA; cl11541 279010003406 oligoendopeptidase F; Region: pepF; TIGR00181 279010003407 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 279010003408 active site 279010003409 Zn binding site [ion binding]; other site 279010003410 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 279010003411 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 279010003412 catalytic residues [active] 279010003413 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 279010003414 apolar tunnel; other site 279010003415 heme binding site [chemical binding]; other site 279010003416 dimerization interface [polypeptide binding]; other site 279010003417 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 279010003418 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279010003419 catalytic residue [active] 279010003420 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 279010003421 putative active site [active] 279010003422 putative metal binding residues [ion binding]; other site 279010003423 signature motif; other site 279010003424 putative triphosphate binding site [ion binding]; other site 279010003425 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 279010003426 synthetase active site [active] 279010003427 NTP binding site [chemical binding]; other site 279010003428 metal binding site [ion binding]; metal-binding site 279010003429 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 279010003430 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 279010003431 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 279010003432 active site 279010003433 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 279010003434 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 279010003435 active site 279010003436 metal binding site [ion binding]; metal-binding site 279010003437 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 279010003438 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 279010003439 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279010003440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003441 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 279010003442 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 279010003443 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 279010003444 thiamine phosphate binding site [chemical binding]; other site 279010003445 active site 279010003446 pyrophosphate binding site [ion binding]; other site 279010003447 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279010003448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003449 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 279010003450 thiS-thiF/thiG interaction site; other site 279010003451 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 279010003452 ThiS interaction site; other site 279010003453 putative active site [active] 279010003454 tetramer interface [polypeptide binding]; other site 279010003455 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 279010003456 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 279010003457 ATP binding site [chemical binding]; other site 279010003458 substrate interface [chemical binding]; other site 279010003459 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 279010003460 dimer interface [polypeptide binding]; other site 279010003461 substrate binding site [chemical binding]; other site 279010003462 ATP binding site [chemical binding]; other site 279010003463 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 279010003464 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 279010003465 NAD binding site [chemical binding]; other site 279010003466 homotetramer interface [polypeptide binding]; other site 279010003467 homodimer interface [polypeptide binding]; other site 279010003468 substrate binding site [chemical binding]; other site 279010003469 active site 279010003470 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 279010003471 Spore coat protein Z; Region: Spore-coat_CotZ; pfam10612 279010003472 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 279010003473 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 279010003474 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 279010003475 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 279010003476 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 279010003477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010003478 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010003479 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279010003480 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 279010003481 NAD binding site [chemical binding]; other site 279010003482 homodimer interface [polypeptide binding]; other site 279010003483 active site 279010003484 substrate binding site [chemical binding]; other site 279010003485 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 279010003486 active site 279010003487 tetramer interface; other site 279010003488 GtrA-like protein; Region: GtrA; cl00971 279010003489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010003490 Coenzyme A binding pocket [chemical binding]; other site 279010003491 hypothetical protein; Provisional; Region: PRK13679 279010003492 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 279010003493 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 279010003494 Putative esterase; Region: Esterase; pfam00756 279010003495 DinB superfamily; Region: DinB_2; cl00986 279010003496 Predicted transcriptional regulator [Transcription]; Region: COG2378 279010003497 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003498 cystathionine gamma-synthase; Reviewed; Region: PRK08247 279010003499 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 279010003500 homodimer interface [polypeptide binding]; other site 279010003501 substrate-cofactor binding pocket; other site 279010003502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003503 catalytic residue [active] 279010003504 cystathionine beta-lyase; Provisional; Region: PRK08064 279010003505 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 279010003506 homodimer interface [polypeptide binding]; other site 279010003507 substrate-cofactor binding pocket; other site 279010003508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003509 catalytic residue [active] 279010003510 Protein of unknown function (DUF819); Region: DUF819; cl02317 279010003511 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010003513 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 279010003514 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 279010003515 substrate binding site [chemical binding]; other site 279010003516 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 279010003517 active site 279010003518 maltose O-acetyltransferase; Provisional; Region: PRK10092 279010003519 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 279010003520 active site 279010003521 substrate binding site [chemical binding]; other site 279010003522 trimer interface [polypeptide binding]; other site 279010003523 CoA binding site [chemical binding]; other site 279010003524 photosystem II complex extrinsic protein precursor U; Provisional; Region: psbU; PRK02515 279010003525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010003526 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003527 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 279010003528 putative dimerization interface [polypeptide binding]; other site 279010003529 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 279010003530 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010003531 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 279010003532 FAD binding pocket [chemical binding]; other site 279010003533 FAD binding motif [chemical binding]; other site 279010003534 catalytic residues [active] 279010003535 NAD binding pocket [chemical binding]; other site 279010003536 phosphate binding motif [ion binding]; other site 279010003537 beta-alpha-beta structure motif; other site 279010003538 sulfite reductase subunit beta; Provisional; Region: PRK13504 279010003539 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279010003540 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279010003541 EamA-like transporter family; Region: EamA; cl01037 279010003542 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010003543 EamA-like transporter family; Region: EamA; cl01037 279010003544 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 279010003545 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010003546 putative metal binding site [ion binding]; other site 279010003547 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 279010003548 putative peptidoglycan binding site; other site 279010003549 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 279010003550 putative peptidoglycan binding site; other site 279010003551 3D domain; Region: 3D; cl01439 279010003552 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 279010003553 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010003554 putative substrate translocation pore; other site 279010003555 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 279010003556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010003557 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003558 Protein of unknown function (DUF867); Region: DUF867; cl01713 279010003559 Domain of unknown function (DUF955); Region: DUF955; cl01076 279010003560 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 279010003561 non-specific DNA binding site [nucleotide binding]; other site 279010003562 salt bridge; other site 279010003563 sequence-specific DNA binding site [nucleotide binding]; other site 279010003564 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 279010003565 non-specific DNA binding site [nucleotide binding]; other site 279010003566 salt bridge; other site 279010003567 sequence-specific DNA binding site [nucleotide binding]; other site 279010003568 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003569 hypothetical protein; Provisional; Region: PRK06921 279010003570 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 279010003571 Walker A motif; other site 279010003572 ATP binding site [chemical binding]; other site 279010003573 Walker B motif; other site 279010003574 positive control sigma-like factor; Validated; Region: PRK06930 279010003575 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 279010003576 DNA binding residues [nucleotide binding] 279010003577 Phage terminase small subunit; Region: Phage_terminase; pfam10668 279010003578 Terminase small subunit; Region: Terminase_2; cl01513 279010003579 Phage terminase large subunit; Region: Terminase_3; cl12054 279010003580 Terminase-like family; Region: Terminase_6; pfam03237 279010003581 Phage-related protein [Function unknown]; Region: COG4695; cl01923 279010003582 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 279010003583 Phage capsid family; Region: Phage_capsid; pfam05065 279010003584 Putative Head-Tail Connector Protein Yqbg from Bacillus subtilis and similar proteins; Region: Yqbg; cd08053 279010003585 Domain of unknown function (DUF3599); Region: DUF3599; pfam12206 279010003586 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 279010003587 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 279010003588 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 279010003589 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 279010003590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279010003591 catalytic residue [active] 279010003592 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 279010003593 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 279010003594 putative peptidoglycan binding site; other site 279010003595 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 279010003596 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 279010003597 Baseplate J-like protein; Region: Baseplate_J; cl01294 279010003598 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 279010003599 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 279010003600 Haemolysin XhlA; Region: XhlA; pfam10779 279010003601 Phage lysis protein, holin; Region: Phage_holin; cl04675 279010003602 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 279010003603 amidase catalytic site [active] 279010003604 Zn binding residues [ion binding]; other site 279010003605 substrate binding site [chemical binding]; other site 279010003606 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010003607 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010003608 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010003609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010003610 DNA-binding site [nucleotide binding]; DNA binding site 279010003611 FCD domain; Region: FCD; cl11656 279010003612 putative oxidoreductase; Provisional; Region: PRK10083 279010003613 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 279010003614 putative NAD(P) binding site [chemical binding]; other site 279010003615 catalytic Zn binding site [ion binding]; other site 279010003616 structural Zn binding site [ion binding]; other site 279010003617 mannonate dehydratase; Provisional; Region: PRK03906 279010003618 mannonate dehydratase; Region: uxuA; TIGR00695 279010003619 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 279010003620 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279010003621 putative NAD(P) binding site [chemical binding]; other site 279010003622 active site 279010003623 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 279010003624 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279010003625 putative NAD(P) binding site [chemical binding]; other site 279010003626 catalytic Zn binding site [ion binding]; other site 279010003627 structural Zn binding site [ion binding]; other site 279010003628 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 279010003629 D-galactonate transporter; Region: 2A0114; TIGR00893 279010003630 putative substrate translocation pore; other site 279010003631 Phosphate transporter family; Region: PHO4; cl00396 279010003632 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 279010003633 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 279010003634 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 279010003635 Protein of unknown function, DUF624; Region: DUF624; cl02369 279010003636 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 279010003637 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 279010003638 dimerization interface [polypeptide binding]; other site 279010003639 Histidine kinase; Region: His_kinase; pfam06580 279010003640 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 279010003641 ATP binding site [chemical binding]; other site 279010003642 Mg2+ binding site [ion binding]; other site 279010003643 G-X-G motif; other site 279010003644 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 279010003645 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 279010003646 active site 279010003647 phosphorylation site [posttranslational modification] 279010003648 intermolecular recognition site; other site 279010003649 dimerization interface [polypeptide binding]; other site 279010003650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010003651 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010003652 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 279010003653 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 279010003654 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 279010003655 dimer interface [polypeptide binding]; other site 279010003656 conserved gate region; other site 279010003657 putative PBP binding loops; other site 279010003658 ABC-ATPase subunit interface; other site 279010003659 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010003660 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 279010003661 dimer interface [polypeptide binding]; other site 279010003662 conserved gate region; other site 279010003663 putative PBP binding loops; other site 279010003664 ABC-ATPase subunit interface; other site 279010003665 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 279010003666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010003667 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010003668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010003669 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 279010003670 active site 279010003671 catalytic triad [active] 279010003672 Domain of unknown function (DUF1961); Region: DUF1961; pfam09224 279010003673 Protein of unknown function, DUF624; Region: DUF624; cl02369 279010003674 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 279010003675 metal binding site [ion binding]; metal-binding site 279010003676 active site 279010003677 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 279010003678 active site 279010003679 catalytic triad [active] 279010003680 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 279010003681 metal binding site [ion binding]; metal-binding site 279010003682 active site 279010003683 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 279010003684 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 279010003685 active site 279010003686 catalytic tetrad [active] 279010003687 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 279010003688 active site 279010003689 catalytic triad [active] 279010003690 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 279010003691 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 279010003692 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 279010003693 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 279010003694 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 279010003695 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 279010003696 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 279010003697 dimer interface [polypeptide binding]; other site 279010003698 conserved gate region; other site 279010003699 ABC-ATPase subunit interface; other site 279010003700 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010003701 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 279010003702 dimer interface [polypeptide binding]; other site 279010003703 conserved gate region; other site 279010003704 putative PBP binding loops; other site 279010003705 ABC-ATPase subunit interface; other site 279010003706 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 279010003707 Amino acid permease; Region: AA_permease; cl00524 279010003708 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 279010003709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010003710 Zn binding site [ion binding]; other site 279010003711 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 279010003712 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010003713 Zn binding site [ion binding]; other site 279010003714 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 279010003715 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 279010003716 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 279010003717 protein binding site [polypeptide binding]; other site 279010003718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010003719 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 279010003720 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 279010003721 SxDxEG motif; other site 279010003722 active site 279010003723 metal binding site [ion binding]; metal-binding site 279010003724 homopentamer interface [polypeptide binding]; other site 279010003725 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 279010003726 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 279010003727 dimer interface [polypeptide binding]; other site 279010003728 conserved gate region; other site 279010003729 putative PBP binding loops; other site 279010003730 ABC-ATPase subunit interface; other site 279010003731 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 279010003732 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 279010003733 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 279010003734 putative PBP binding loops; other site 279010003735 dimer interface [polypeptide binding]; other site 279010003736 ABC-ATPase subunit interface; other site 279010003737 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 279010003738 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 279010003739 Walker A/P-loop; other site 279010003740 ATP binding site [chemical binding]; other site 279010003741 Q-loop/lid; other site 279010003742 ABC transporter signature motif; other site 279010003743 Walker B; other site 279010003744 D-loop; other site 279010003745 H-loop/switch region; other site 279010003746 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003747 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 279010003748 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 279010003749 peptide binding site [polypeptide binding]; other site 279010003750 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 279010003751 dimer interface [polypeptide binding]; other site 279010003752 catalytic triad [active] 279010003753 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 279010003754 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 279010003755 active site 279010003756 NlpC/P60 family; Region: NLPC_P60; cl11438 279010003757 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 279010003758 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 279010003759 Walker A/P-loop; other site 279010003760 ATP binding site [chemical binding]; other site 279010003761 Q-loop/lid; other site 279010003762 ABC transporter signature motif; other site 279010003763 Walker B; other site 279010003764 D-loop; other site 279010003765 H-loop/switch region; other site 279010003766 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010003767 Amidinotransferase; Region: Amidinotransf; cl12043 279010003768 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 279010003769 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 279010003770 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010003771 Pectate lyase; Region: Pec_lyase_C; cl01593 279010003772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003773 hypothetical protein; Validated; Region: PRK07668 279010003774 DinB superfamily; Region: DinB_2; cl00986 279010003775 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010003776 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010003777 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 279010003778 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 279010003779 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 279010003780 putative active site [active] 279010003781 putative substrate binding site [chemical binding]; other site 279010003782 putative cosubstrate binding site; other site 279010003783 catalytic site [active] 279010003784 gamma-glutamyl kinase; Provisional; Region: PRK05429 279010003785 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 279010003786 nucleotide binding site [chemical binding]; other site 279010003787 homotetrameric interface [polypeptide binding]; other site 279010003788 putative phosphate binding site [ion binding]; other site 279010003789 putative allosteric binding site; other site 279010003790 PUA domain; Region: PUA; cl00607 279010003791 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 279010003792 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 279010003793 putative catalytic cysteine [active] 279010003794 OsmC-like protein; Region: OsmC; cl00767 279010003795 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010003796 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003797 OsmC-like protein; Region: OsmC; cl00767 279010003798 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 279010003799 nucleoside/Zn binding site; other site 279010003800 dimer interface [polypeptide binding]; other site 279010003801 catalytic motif [active] 279010003802 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 279010003803 catalytic core [active] 279010003804 Proteins of 100 residues with WXG; Region: WXG100; cl02005 279010003805 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 279010003806 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 279010003807 THF binding site; other site 279010003808 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 279010003809 substrate binding site [chemical binding]; other site 279010003810 THF binding site; other site 279010003811 zinc-binding site [ion binding]; other site 279010003812 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 279010003813 active site 279010003814 catalytic residues [active] 279010003815 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 279010003816 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 279010003817 MgtE intracellular N domain; Region: MgtE_N; cl15244 279010003818 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 279010003819 Divalent cation transporter; Region: MgtE; cl00786 279010003820 direct repeat for prophage NZP1 279010003821 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 279010003822 Phage integrase family; Region: Phage_integrase; pfam00589 279010003823 Int/Topo IB signature motif; other site 279010003824 Domain of unknown function (DUF955); Region: DUF955; cl01076 279010003825 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279010003826 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 279010003827 non-specific DNA binding site [nucleotide binding]; other site 279010003828 salt bridge; other site 279010003829 sequence-specific DNA binding site [nucleotide binding]; other site 279010003830 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003831 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 279010003832 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 279010003833 non-specific DNA binding site [nucleotide binding]; other site 279010003834 salt bridge; other site 279010003835 sequence-specific DNA binding site [nucleotide binding]; other site 279010003836 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 279010003837 RecT family; Region: RecT; cl04285 279010003838 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 279010003839 hypothetical protein; Provisional; Region: PRK06921 279010003840 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 279010003841 Walker A motif; other site 279010003842 ATP binding site [chemical binding]; other site 279010003843 Walker B motif; other site 279010003844 arginine finger; other site 279010003845 IDEAL domain; Region: IDEAL; cl07452 279010003846 YopX protein; Region: YopX; cl09859 279010003847 YopX protein; Region: YopX; cl09859 279010003848 Endodeoxyribonuclease RusA; Region: RusA; cl01885 279010003849 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 279010003850 dimer interface [polypeptide binding]; other site 279010003851 ssDNA binding site [nucleotide binding]; other site 279010003852 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; cl15358 279010003853 Uncharacterized conserved protein [Function unknown]; Region: COG5484 279010003854 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; cl15358 279010003855 Phage terminase large subunit; Region: Terminase_3; cl12054 279010003856 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 279010003857 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 279010003858 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 279010003859 Phage capsid family; Region: Phage_capsid; pfam05065 279010003860 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 279010003861 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 279010003862 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 279010003863 Phage major tail protein 2; Region: Phage_tail_2; cl11463 279010003864 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 279010003865 Interdomain contacts; other site 279010003866 Cytokine receptor motif; other site 279010003867 Phage protein; Region: DUF3647; cl10335 279010003868 Phage-related protein [Function unknown]; Region: COG5412 279010003869 membrane protein P6; Region: PHA01399 279010003870 Phage-related protein [Function unknown]; Region: COG5412 279010003871 Phage tail protein; Region: Sipho_tail; cl11462 279010003872 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 279010003873 Haemolysin XhlA; Region: XhlA; pfam10779 279010003874 Phage lysis protein, holin; Region: Phage_holin; cl04675 279010003875 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 279010003876 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 279010003877 active site 279010003878 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 279010003879 putative peptidoglycan binding site; other site 279010003880 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 279010003881 putative peptidoglycan binding site; other site 279010003882 Cupin domain; Region: Cupin_2; cl09118 279010003883 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 279010003884 dinuclear metal binding motif [ion binding]; other site 279010003885 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 279010003886 diiron binding motif [ion binding]; other site 279010003887 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010003888 direct repeat for prophage NZP1 279010003889 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 279010003890 DNA binding residues [nucleotide binding] 279010003891 putative dimer interface [polypeptide binding]; other site 279010003892 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003893 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK09633 279010003894 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 279010003895 active site 279010003896 DNA binding site [nucleotide binding] 279010003897 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_3; cd04866 279010003898 nucleotide binding site [chemical binding]; other site 279010003899 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 279010003900 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 279010003901 putative DNA binding site [nucleotide binding]; other site 279010003902 putative homodimer interface [polypeptide binding]; other site 279010003903 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 279010003904 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 279010003905 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 279010003906 PAS domain S-box; Region: sensory_box; TIGR00229 279010003907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279010003908 metal binding site [ion binding]; metal-binding site 279010003909 active site 279010003910 I-site; other site 279010003911 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 279010003912 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010003913 Integral membrane protein TerC family; Region: TerC; cl10468 279010003914 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 279010003915 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010003916 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 279010003917 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 279010003918 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 279010003919 Peptidase family M48; Region: Peptidase_M48; cl12018 279010003920 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 279010003921 Cation transport protein; Region: TrkH; cl10514 279010003922 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 279010003923 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 279010003924 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010003925 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010003926 OpgC protein; Region: OpgC_C; cl00792 279010003927 PAS fold; Region: PAS; pfam00989 279010003928 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 279010003929 putative active site [active] 279010003930 heme pocket [chemical binding]; other site 279010003931 PAS domain S-box; Region: sensory_box; TIGR00229 279010003932 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 279010003933 PAS domain S-box; Region: sensory_box; TIGR00229 279010003934 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 279010003935 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 279010003936 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 279010003937 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 279010003938 dimer interface [polypeptide binding]; other site 279010003939 phosphorylation site [posttranslational modification] 279010003940 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 279010003941 ATP binding site [chemical binding]; other site 279010003942 Mg2+ binding site [ion binding]; other site 279010003943 G-X-G motif; other site 279010003944 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 279010003945 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 279010003946 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 279010003947 DNA binding site [nucleotide binding] 279010003948 active site 279010003949 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 279010003950 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 279010003951 Phosphotransferase enzyme family; Region: APH; pfam01636 279010003952 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 279010003953 substrate binding site [chemical binding]; other site 279010003954 Predicted amidohydrolase [General function prediction only]; Region: COG0388 279010003955 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 279010003956 putative active site [active] 279010003957 catalytic triad [active] 279010003958 putative dimer interface [polypeptide binding]; other site 279010003959 transaminase; Reviewed; Region: PRK08068 279010003960 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 279010003961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010003962 homodimer interface [polypeptide binding]; other site 279010003963 catalytic residue [active] 279010003964 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: salvage_mtnW; TIGR03332 279010003965 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Region: RLP_DK-MTP-1-P-enolase; cd08209 279010003966 dimer interface [polypeptide binding]; other site 279010003967 active site 279010003968 catalytic residue [active] 279010003969 metal binding site [ion binding]; metal-binding site 279010003970 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 279010003971 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 279010003972 motif II; other site 279010003973 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 279010003974 intersubunit interface [polypeptide binding]; other site 279010003975 active site 279010003976 Zn2+ binding site [ion binding]; other site 279010003977 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 279010003978 Cupin domain; Region: Cupin_2; cl09118 279010003979 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010003980 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 279010003981 active site 279010003982 metal binding site [ion binding]; metal-binding site 279010003983 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 279010003984 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 279010003985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279010003986 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 279010003987 dimer interface [polypeptide binding]; other site 279010003988 phosphorylation site [posttranslational modification] 279010003989 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 279010003990 ATP binding site [chemical binding]; other site 279010003991 Mg2+ binding site [ion binding]; other site 279010003992 G-X-G motif; other site 279010003993 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010003994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010003995 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 279010003996 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279010003997 ligand binding site [chemical binding]; other site 279010003998 flagellar motor protein MotA; Validated; Region: PRK08124 279010003999 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 279010004000 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 279010004001 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 279010004002 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 279010004003 Walker A motif; other site 279010004004 ATP binding site [chemical binding]; other site 279010004005 Walker B motif; other site 279010004006 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 279010004007 arginine finger; other site 279010004008 UvrB/uvrC motif; Region: UVR; pfam02151 279010004009 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 279010004010 Walker A motif; other site 279010004011 ATP binding site [chemical binding]; other site 279010004012 Walker B motif; other site 279010004013 arginine finger; other site 279010004014 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 279010004015 Uncharacterized membrane protein [Function unknown]; Region: COG3949 279010004016 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 279010004017 Ligand Binding Site [chemical binding]; other site 279010004018 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 279010004019 active site 279010004020 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 279010004021 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; cl15367 279010004022 FeS/SAM binding site; other site 279010004023 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 279010004024 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 279010004025 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 279010004026 DNA binding site [nucleotide binding] 279010004027 Int/Topo IB signature motif; other site 279010004028 active site 279010004029 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 279010004030 nucleophilic elbow; other site 279010004031 catalytic triad; other site 279010004032 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 279010004033 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 279010004034 active site 279010004035 DNA binding site [nucleotide binding] 279010004036 NZP2 direct repeat 279010004037 prophage NZP2 279010004038 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; cl00083 279010004039 Phage terminase, small subunit; Region: Terminase_4; cl01525 279010004040 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 279010004041 Phage Terminase; Region: Terminase_1; pfam03354 279010004042 Phage portal protein; Region: Phage_portal; pfam04860 279010004043 Phage-related protein [Function unknown]; Region: COG4695; cl01923 279010004044 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 279010004045 oligomer interface [polypeptide binding]; other site 279010004046 active site residues [active] 279010004047 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 279010004048 Phage capsid family; Region: Phage_capsid; pfam05065 279010004049 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; cl00065 279010004050 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 279010004051 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 279010004052 oligomerization interface [polypeptide binding]; other site 279010004053 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 279010004054 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 279010004055 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 279010004056 Interdomain contacts; other site 279010004057 Cytokine receptor motif; other site 279010004058 Phage tail protein; Region: Sipho_tail; cl11462 279010004059 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 279010004060 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 279010004061 XkdW protein; Region: XkdW; pfam09636 279010004062 Phage uncharacterised protein (Phage_XkdX); Region: Phage_XkdX; cl09900 279010004063 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 279010004064 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 279010004065 active site 279010004066 catalytic site [active] 279010004067 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 279010004068 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 279010004069 amidase catalytic site [active] 279010004070 Zn binding residues [ion binding]; other site 279010004071 substrate binding site [chemical binding]; other site 279010004072 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 279010004073 putative peptidoglycan binding site; other site 279010004074 Phage holin; Region: Phage_holin_5; pfam06946 279010004075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004076 YolD-like protein; Region: YolD; pfam08863 279010004077 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 279010004078 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 279010004079 Phage integrase family; Region: Phage_integrase; pfam00589 279010004080 Int/Topo IB signature motif; other site 279010004081 Protein of unknown function (DUF817); Region: DUF817; cl01520 279010004082 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004083 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 279010004084 NZP2 direct repeat 279010004085 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 279010004086 nucleophilic elbow; other site 279010004087 catalytic triad; other site 279010004088 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 279010004089 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 279010004090 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 279010004091 MatE; Region: MatE; cl10513 279010004092 MatE; Region: MatE; cl10513 279010004093 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 279010004094 catalytic residues [active] 279010004095 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 279010004096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279010004097 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010004098 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 279010004099 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 279010004100 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 279010004101 active site 279010004102 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 279010004103 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010004104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010004105 DNA binding site [nucleotide binding] 279010004106 domain linker motif; other site 279010004107 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 279010004108 putative dimerization interface [polypeptide binding]; other site 279010004109 putative ligand binding site [chemical binding]; other site 279010004110 CAT RNA binding domain; Region: CAT_RBD; cl03904 279010004111 transcriptional antiterminator BglG; Provisional; Region: PRK09772 279010004112 PRD domain; Region: PRD; cl15445 279010004113 PRD domain; Region: PRD; cl15445 279010004114 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 279010004115 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010004116 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 279010004117 active site turn [active] 279010004118 phosphorylation site [posttranslational modification] 279010004119 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 279010004120 HPr interaction site; other site 279010004121 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279010004122 active site 279010004123 phosphorylation site [posttranslational modification] 279010004124 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 279010004125 dimerization domain swap beta strand [polypeptide binding]; other site 279010004126 regulatory protein interface [polypeptide binding]; other site 279010004127 active site 279010004128 regulatory phosphorylation site [posttranslational modification]; other site 279010004129 phosphoenolpyruvate-protein phosphotransferase; Region: PTS_I_fam; TIGR01417 279010004130 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 279010004131 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 279010004132 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 279010004133 Transcriptional regulator protein (SplA); Region: SplA; pfam11132 279010004134 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 279010004135 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 279010004136 FeS/SAM binding site; other site 279010004137 putative acetyltransferase; Provisional; Region: PRK03624 279010004138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010004139 Coenzyme A binding pocket [chemical binding]; other site 279010004140 Cache domain; Region: Cache_1; pfam02743 279010004141 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 279010004142 dimerization interface [polypeptide binding]; other site 279010004143 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010004144 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010004145 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010004146 dimerization interface [polypeptide binding]; other site 279010004147 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010004148 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 279010004149 putative NAD(P) binding site [chemical binding]; other site 279010004150 putative active site [active] 279010004151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004152 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 279010004153 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 279010004154 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010004155 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010004156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010004157 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 279010004158 putative active site [active] 279010004159 heme pocket [chemical binding]; other site 279010004160 PAS fold; Region: PAS; pfam00989 279010004161 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 279010004162 putative active site [active] 279010004163 heme pocket [chemical binding]; other site 279010004164 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 279010004165 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 279010004166 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 279010004167 dimer interface [polypeptide binding]; other site 279010004168 phosphorylation site [posttranslational modification] 279010004169 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 279010004170 ATP binding site [chemical binding]; other site 279010004171 Mg2+ binding site [ion binding]; other site 279010004172 G-X-G motif; other site 279010004173 aminotransferase A; Validated; Region: PRK07683 279010004174 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 279010004175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010004176 homodimer interface [polypeptide binding]; other site 279010004177 catalytic residue [active] 279010004178 RDD family; Region: RDD; cl00746 279010004179 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 279010004180 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 279010004181 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 279010004182 putative CheA interaction surface; other site 279010004183 Response regulator receiver domain; Region: Response_reg; pfam00072 279010004184 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 279010004185 active site 279010004186 phosphorylation site [posttranslational modification] 279010004187 intermolecular recognition site; other site 279010004188 dimerization interface [polypeptide binding]; other site 279010004189 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010004190 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 279010004191 putative substrate translocation pore; other site 279010004192 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 279010004193 putative peptidoglycan binding site; other site 279010004194 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 279010004195 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 279010004196 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010004197 putative active site [active] 279010004198 putative metal binding site [ion binding]; other site 279010004199 short chain dehydrogenase; Provisional; Region: PRK07677 279010004200 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 279010004201 NAD(P) binding site [chemical binding]; other site 279010004202 substrate binding site [chemical binding]; other site 279010004203 homotetramer interface [polypeptide binding]; other site 279010004204 active site 279010004205 homodimer interface [polypeptide binding]; other site 279010004206 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 279010004207 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 279010004208 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 279010004209 Protein of unknown function (DUF458); Region: DUF458; cl00861 279010004210 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 279010004211 FOG: CBS domain [General function prediction only]; Region: COG0517 279010004212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010004213 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004214 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 279010004215 dimerization interface [polypeptide binding]; other site 279010004216 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010004217 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010004218 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 279010004219 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 279010004220 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 279010004221 active site 279010004222 trimer interface [polypeptide binding]; other site 279010004223 substrate binding site [chemical binding]; other site 279010004224 CoA binding site [chemical binding]; other site 279010004225 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279010004226 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 279010004227 metal binding site [ion binding]; metal-binding site 279010004228 putative dimer interface [polypeptide binding]; other site 279010004229 Uncharacterised protein family (UPF0180); Region: UPF0180; cl04214 279010004230 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 279010004231 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 279010004232 dimer interface [polypeptide binding]; other site 279010004233 decamer (pentamer of dimers) interface [polypeptide binding]; other site 279010004234 catalytic triad [active] 279010004235 peroxidatic and resolving cysteines [active] 279010004236 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 279010004237 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 279010004238 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 279010004239 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 279010004240 GTP binding site; other site 279010004241 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional; Region: PRK12475 279010004242 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 279010004243 ATP binding site [chemical binding]; other site 279010004244 substrate interface [chemical binding]; other site 279010004245 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 279010004246 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 279010004247 dimer interface [polypeptide binding]; other site 279010004248 putative functional site; other site 279010004249 putative MPT binding site; other site 279010004250 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 279010004251 Walker A motif; other site 279010004252 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 279010004253 MoaE homodimer interface [polypeptide binding]; other site 279010004254 MoaD interaction [polypeptide binding]; other site 279010004255 active site residues [active] 279010004256 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 279010004257 MoaE interaction surface [polypeptide binding]; other site 279010004258 MoeB interaction surface [polypeptide binding]; other site 279010004259 thiocarboxylated glycine; other site 279010004260 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010004261 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010004262 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 279010004263 Walker A/P-loop; other site 279010004264 ATP binding site [chemical binding]; other site 279010004265 Q-loop/lid; other site 279010004266 ABC transporter signature motif; other site 279010004267 Walker B; other site 279010004268 D-loop; other site 279010004269 H-loop/switch region; other site 279010004270 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010004271 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010004272 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 279010004273 Walker A/P-loop; other site 279010004274 ATP binding site [chemical binding]; other site 279010004275 Q-loop/lid; other site 279010004276 ABC transporter signature motif; other site 279010004277 Walker B; other site 279010004278 D-loop; other site 279010004279 H-loop/switch region; other site 279010004280 Yip1 domain; Region: Yip1; cl12048 279010004281 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 279010004282 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010004283 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 279010004284 Walker A/P-loop; other site 279010004285 ATP binding site [chemical binding]; other site 279010004286 Q-loop/lid; other site 279010004287 ABC transporter signature motif; other site 279010004288 Walker B; other site 279010004289 D-loop; other site 279010004290 H-loop/switch region; other site 279010004291 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 279010004292 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 279010004293 FtsX-like permease family; Region: FtsX; pfam02687 279010004294 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279010004295 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004296 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 279010004297 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 279010004298 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 279010004299 putative substrate binding site [chemical binding]; other site 279010004300 putative ATP binding site [chemical binding]; other site 279010004301 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 279010004302 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 279010004303 active site 279010004304 phosphorylation site [posttranslational modification] 279010004305 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 279010004306 P-loop; other site 279010004307 active site 279010004308 phosphorylation site [posttranslational modification] 279010004309 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010004310 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 279010004311 Catalytic site [active] 279010004312 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 279010004313 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 279010004314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004315 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 279010004316 ABC transporter; Region: ABC_tran_2; pfam12848 279010004317 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 279010004318 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 279010004319 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 279010004320 rod-share determining protein MreBH; Provisional; Region: PRK13929 279010004321 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 279010004322 ATP binding site [chemical binding]; other site 279010004323 profilin binding site; other site 279010004324 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 279010004325 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 279010004326 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 279010004327 putative active site [active] 279010004328 heme pocket [chemical binding]; other site 279010004329 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 279010004330 dimer interface [polypeptide binding]; other site 279010004331 phosphorylation site [posttranslational modification] 279010004332 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 279010004333 ATP binding site [chemical binding]; other site 279010004334 Mg2+ binding site [ion binding]; other site 279010004335 G-X-G motif; other site 279010004336 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279010004337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004338 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 279010004339 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 279010004340 adenine deaminase; Region: ade; TIGR01178 279010004341 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 279010004342 active site 279010004343 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 279010004344 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 279010004345 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010004346 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 279010004347 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 279010004348 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 279010004349 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010004350 active site 279010004351 motif I; other site 279010004352 motif II; other site 279010004353 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 279010004354 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 279010004355 active site 279010004356 catalytic residues [active] 279010004357 metal binding site [ion binding]; metal-binding site 279010004358 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 279010004359 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 279010004360 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 279010004361 TPP-binding site [chemical binding]; other site 279010004362 tetramer interface [polypeptide binding]; other site 279010004363 heterodimer interface [polypeptide binding]; other site 279010004364 phosphorylation loop region [posttranslational modification] 279010004365 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279010004366 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 279010004367 alpha subunit interface [polypeptide binding]; other site 279010004368 TPP binding site [chemical binding]; other site 279010004369 heterodimer interface [polypeptide binding]; other site 279010004370 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010004371 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279010004372 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 279010004373 E3 interaction surface; other site 279010004374 lipoyl attachment site [posttranslational modification]; other site 279010004375 e3 binding domain; Region: E3_binding; pfam02817 279010004376 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 279010004377 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 279010004378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004380 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279010004381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004382 putative transposase OrfB; Reviewed; Region: PHA02517 279010004383 Integrase core domain; Region: rve; cl01316 279010004384 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004385 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 279010004386 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 279010004387 homodimer interface [polypeptide binding]; other site 279010004388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010004389 catalytic residue [active] 279010004390 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 279010004391 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 279010004392 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 279010004393 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 279010004394 active site 279010004395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010004396 Coenzyme A binding pocket [chemical binding]; other site 279010004397 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010004398 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 279010004399 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 279010004400 DNA binding residues [nucleotide binding] 279010004401 Anti-sigma-K factor rskA; Region: RskA; cl15366 279010004402 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 279010004403 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 279010004404 G1 box; other site 279010004405 putative GEF interaction site [polypeptide binding]; other site 279010004406 GTP/Mg2+ binding site [chemical binding]; other site 279010004407 Switch I region; other site 279010004408 G2 box; other site 279010004409 G3 box; other site 279010004410 Switch II region; other site 279010004411 G4 box; other site 279010004412 G5 box; other site 279010004413 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 279010004414 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 279010004415 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010004416 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004417 hypothetical protein; Provisional; Region: PRK08244 279010004418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004419 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; cl11558 279010004420 sporulation lipoprotein, YhcN/YlaJ family; Region: spore_YhcN_YlaJ; TIGR02898 279010004421 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 279010004422 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 279010004423 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 279010004424 putative active site [active] 279010004425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004426 Glutaminase; Region: Glutaminase; cl00907 279010004427 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 279010004428 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010004429 pyruvate carboxylase; Reviewed; Region: PRK12999 279010004430 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010004431 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010004432 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 279010004433 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 279010004434 active site 279010004435 catalytic residues [active] 279010004436 metal binding site [ion binding]; metal-binding site 279010004437 homodimer binding site [polypeptide binding]; other site 279010004438 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 279010004439 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 279010004440 carboxyltransferase (CT) interaction site; other site 279010004441 biotinylation site [posttranslational modification]; other site 279010004442 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 279010004443 UbiA prenyltransferase family; Region: UbiA; cl00337 279010004444 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 279010004445 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 279010004446 Cytochrome c; Region: Cytochrom_C; cl11414 279010004447 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 279010004448 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 279010004449 D-pathway; other site 279010004450 Putative ubiquinol binding site [chemical binding]; other site 279010004451 Low-spin heme (heme b) binding site [chemical binding]; other site 279010004452 Putative water exit pathway; other site 279010004453 Binuclear center (heme o3/CuB) [ion binding]; other site 279010004454 K-pathway; other site 279010004455 Putative proton exit pathway; other site 279010004456 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 279010004457 Subunit I/III interface [polypeptide binding]; other site 279010004458 Subunit III/IV interface [polypeptide binding]; other site 279010004459 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 279010004460 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 279010004461 YugN-like family; Region: YugN; pfam08868 279010004462 FOG: CBS domain [General function prediction only]; Region: COG0517 279010004463 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 279010004464 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 279010004465 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 279010004466 Protein of unknown function (DUF964); Region: DUF964; cl01483 279010004467 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 279010004468 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 279010004469 S-adenosylmethionine binding site [chemical binding]; other site 279010004470 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 279010004471 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 279010004472 active site 279010004473 (T/H)XGH motif; other site 279010004474 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 279010004475 Nucleoside recognition; Region: Gate; cl00486 279010004476 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 279010004477 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 279010004478 protein binding site [polypeptide binding]; other site 279010004479 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 279010004480 hypothetical protein; Provisional; Region: PRK13670 279010004481 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279010004482 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 279010004483 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 279010004484 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 279010004485 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 279010004486 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010004487 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 279010004488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004489 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 279010004490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 279010004491 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 279010004492 mraZ protein; Region: TIGR00242 279010004493 MraZ protein; Region: MraZ; pfam02381 279010004494 MraZ protein; Region: MraZ; pfam02381 279010004495 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 279010004496 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; cl12011 279010004497 Septum formation initiator; Region: DivIC; cl11433 279010004498 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 279010004499 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010004500 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010004501 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 279010004502 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 279010004503 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 279010004504 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010004505 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010004506 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 279010004507 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 279010004508 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279010004509 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010004510 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279010004511 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 279010004512 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 279010004513 Mg++ binding site [ion binding]; other site 279010004514 putative catalytic motif [active] 279010004515 putative substrate binding site [chemical binding]; other site 279010004516 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 279010004517 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010004518 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279010004519 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010004520 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 279010004521 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 279010004522 active site 279010004523 homodimer interface [polypeptide binding]; other site 279010004524 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 279010004525 FAD binding domain; Region: FAD_binding_4; pfam01565 279010004526 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 279010004527 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 279010004528 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 279010004529 Cell division protein FtsQ; Region: FtsQ; pfam03799 279010004530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 279010004531 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 279010004532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 279010004533 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 279010004534 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 279010004535 cell division protein FtsA; Region: ftsA; TIGR01174 279010004536 Cell division protein FtsA; Region: FtsA; cl11496 279010004537 Cell division protein FtsA; Region: FtsA; cl11496 279010004538 cell division protein FtsZ; Validated; Region: PRK09330 279010004539 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 279010004540 nucleotide binding site [chemical binding]; other site 279010004541 SulA interaction site; other site 279010004542 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 279010004543 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 279010004544 active site 279010004545 catalytic triad [active] 279010004546 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 279010004547 Peptidase S8 family domain in BacillopeptidaseF-like proteins; Region: Peptidases_S8_BacillopeptidaseF-like; cd07481 279010004548 active site 279010004549 catalytic triad [active] 279010004550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 279010004551 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 279010004552 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 279010004553 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 279010004554 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 279010004555 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 279010004556 sporulation sigma factor SigE; Reviewed; Region: PRK08301 279010004557 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010004558 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 279010004559 DNA binding residues [nucleotide binding] 279010004560 sporulation sigma factor SigG; Reviewed; Region: PRK08215 279010004561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010004562 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279010004563 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 279010004564 DNA binding residues [nucleotide binding] 279010004565 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 279010004566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004567 Walker A/P-loop; other site 279010004568 ATP binding site [chemical binding]; other site 279010004569 Q-loop/lid; other site 279010004570 ABC transporter signature motif; other site 279010004571 Walker B; other site 279010004572 D-loop; other site 279010004573 H-loop/switch region; other site 279010004574 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 279010004575 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 279010004576 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 279010004577 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 279010004578 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010004579 catalytic residue [active] 279010004580 Protein of unknown function (DUF552); Region: DUF552; cl00775 279010004581 YGGT family; Region: YGGT; cl00508 279010004582 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 279010004583 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 279010004584 RNA binding surface [nucleotide binding]; other site 279010004585 DivIVA protein; Region: DivIVA; pfam05103 279010004586 DivIVA domain; Region: DivI1A_domain; TIGR03544 279010004587 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 279010004588 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 279010004589 HIGH motif; other site 279010004590 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 279010004591 active site 279010004592 KMSKS motif; other site 279010004593 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 279010004594 tRNA binding surface [nucleotide binding]; other site 279010004595 anticodon binding site; other site 279010004596 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 279010004597 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 279010004598 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 279010004599 lipoprotein signal peptidase; Provisional; Region: PRK14787 279010004600 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 279010004601 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 279010004602 RNA binding surface [nucleotide binding]; other site 279010004603 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 279010004604 active site 279010004605 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010004606 Permease family; Region: Xan_ur_permease; cl00967 279010004607 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 279010004608 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 279010004609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004610 dihydroorotase; Validated; Region: pyrC; PRK09357 279010004611 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 279010004612 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 279010004613 active site 279010004614 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 279010004615 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 279010004616 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 279010004617 catalytic site [active] 279010004618 subunit interface [polypeptide binding]; other site 279010004619 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 279010004620 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010004621 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010004622 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010004623 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010004624 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 279010004625 IMP binding site; other site 279010004626 dimer interface [polypeptide binding]; other site 279010004627 interdomain contacts; other site 279010004628 partial ornithine binding site; other site 279010004629 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 279010004630 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 279010004631 FAD binding pocket [chemical binding]; other site 279010004632 FAD binding motif [chemical binding]; other site 279010004633 phosphate binding motif [ion binding]; other site 279010004634 beta-alpha-beta structure motif; other site 279010004635 NAD binding pocket [chemical binding]; other site 279010004636 Iron coordination center [ion binding]; other site 279010004637 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 279010004638 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 279010004639 heterodimer interface [polypeptide binding]; other site 279010004640 active site 279010004641 FMN binding site [chemical binding]; other site 279010004642 homodimer interface [polypeptide binding]; other site 279010004643 substrate binding site [chemical binding]; other site 279010004644 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 279010004645 active site 279010004646 dimer interface [polypeptide binding]; other site 279010004647 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010004648 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 279010004649 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 279010004650 Active Sites [active] 279010004651 Phosphate transporter family; Region: PHO4; cl00396 279010004652 ATP-sulfurylase; Region: ATPS; cd00517 279010004653 active site 279010004654 HXXH motif; other site 279010004655 flexible loop; other site 279010004656 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 279010004657 ligand-binding site [chemical binding]; other site 279010004658 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 279010004659 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 279010004660 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 279010004661 putative active site [active] 279010004662 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 279010004663 putative active site [active] 279010004664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004665 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 279010004666 Domain of unknown function (DUF814); Region: DUF814; pfam05670 279010004667 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 279010004668 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 279010004669 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279010004670 hypothetical protein; Provisional; Region: PRK04081 279010004671 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010004672 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 279010004673 hypothetical protein; Provisional; Region: PRK11820 279010004674 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 279010004675 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 279010004676 Domain of unknown function (DUF370); Region: DUF370; cl00898 279010004677 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 279010004678 catalytic site [active] 279010004679 G-X2-G-X-G-K; other site 279010004680 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 279010004681 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 279010004682 Flavoprotein; Region: Flavoprotein; cl08021 279010004683 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 279010004684 primosome assembly protein PriA; Validated; Region: PRK05580 279010004685 primosome assembly protein PriA; Validated; Region: PRK05580 279010004686 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 279010004687 ATP binding site [chemical binding]; other site 279010004688 putative Mg++ binding site [ion binding]; other site 279010004689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004690 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 279010004691 active site 279010004692 catalytic residues [active] 279010004693 metal binding site [ion binding]; metal-binding site 279010004694 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 279010004695 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 279010004696 putative active site [active] 279010004697 substrate binding site [chemical binding]; other site 279010004698 putative cosubstrate binding site; other site 279010004699 catalytic site [active] 279010004700 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 279010004701 substrate binding site [chemical binding]; other site 279010004702 16S rRNA methyltransferase B; Provisional; Region: PRK14902 279010004703 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 279010004704 putative RNA binding site [nucleotide binding]; other site 279010004705 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 279010004706 S-adenosylmethionine binding site [chemical binding]; other site 279010004707 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 279010004708 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 279010004709 FeS/SAM binding site; other site 279010004710 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 279010004711 Protein phosphatase 2C; Region: PP2C; pfam00481 279010004712 active site 279010004713 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010004714 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 279010004715 active site 279010004716 ATP binding site [chemical binding]; other site 279010004717 substrate binding site [chemical binding]; other site 279010004718 activation loop (A-loop); other site 279010004719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 279010004720 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 279010004721 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 279010004722 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 279010004723 GTPase RsgA; Reviewed; Region: PRK00098 279010004724 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 279010004725 GTPase/OB domain interface [polypeptide binding]; other site 279010004726 GTPase/Zn-binding domain interface [polypeptide binding]; other site 279010004727 GTP/Mg2+ binding site [chemical binding]; other site 279010004728 G4 box; other site 279010004729 G5 box; other site 279010004730 G1 box; other site 279010004731 Switch I region; other site 279010004732 G2 box; other site 279010004733 G3 box; other site 279010004734 Switch II region; other site 279010004735 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 279010004736 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 279010004737 substrate binding site [chemical binding]; other site 279010004738 hexamer interface [polypeptide binding]; other site 279010004739 metal binding site [ion binding]; metal-binding site 279010004740 Thiamine pyrophosphokinase; Region: TPK; cd07995 279010004741 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 279010004742 active site 279010004743 dimerization interface [polypeptide binding]; other site 279010004744 thiamine binding site [chemical binding]; other site 279010004745 Stage V sporulation protein family; Region: SpoV; cl15455 279010004746 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 279010004747 Protein of unknown function (DUF322); Region: DUF322; cl00574 279010004748 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 279010004749 DAK2 domain; Region: Dak2; cl03685 279010004750 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 279010004751 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 279010004752 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 279010004753 putative L-serine binding site [chemical binding]; other site 279010004754 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 279010004755 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 279010004756 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 279010004757 Y-family of DNA polymerases; Region: PolY; cl12025 279010004758 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 279010004759 generic binding surface II; other site 279010004760 ssDNA binding site; other site 279010004761 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 279010004762 ATP binding site [chemical binding]; other site 279010004763 putative Mg++ binding site [ion binding]; other site 279010004764 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 279010004765 nucleotide binding region [chemical binding]; other site 279010004766 ATP-binding site [chemical binding]; other site 279010004767 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 279010004768 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004769 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 279010004770 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 279010004771 Acyl transferase domain; Region: Acyl_transf_1; cl08282 279010004772 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 279010004773 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279010004774 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 279010004775 NAD(P) binding site [chemical binding]; other site 279010004776 homotetramer interface [polypeptide binding]; other site 279010004777 homodimer interface [polypeptide binding]; other site 279010004778 active site 279010004779 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010004780 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 279010004781 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 279010004782 dimerization interface [polypeptide binding]; other site 279010004783 active site 279010004784 metal binding site [ion binding]; metal-binding site 279010004785 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 279010004786 dsRNA binding site [nucleotide binding]; other site 279010004787 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 279010004788 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 279010004789 Walker A/P-loop; other site 279010004790 ATP binding site [chemical binding]; other site 279010004791 Q-loop/lid; other site 279010004792 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 279010004793 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 279010004794 Q-loop/lid; other site 279010004795 ABC transporter signature motif; other site 279010004796 Walker B; other site 279010004797 D-loop; other site 279010004798 H-loop/switch region; other site 279010004799 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 279010004800 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 279010004801 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 279010004802 P loop; other site 279010004803 GTP binding site [chemical binding]; other site 279010004804 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; cl15358 279010004805 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 279010004806 signal recognition particle protein; Provisional; Region: PRK10867 279010004807 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 279010004808 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 279010004809 P loop; other site 279010004810 GTP binding site [chemical binding]; other site 279010004811 Signal peptide binding domain; Region: SRP_SPB; pfam02978 279010004812 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 279010004813 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 279010004814 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 279010004815 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 279010004816 RimM N-terminal domain; Region: RimM; pfam01782 279010004817 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 279010004818 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 279010004819 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 279010004820 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 279010004821 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 279010004822 GTP/Mg2+ binding site [chemical binding]; other site 279010004823 G4 box; other site 279010004824 G5 box; other site 279010004825 G1 box; other site 279010004826 Switch I region; other site 279010004827 G2 box; other site 279010004828 G3 box; other site 279010004829 Switch II region; other site 279010004830 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 279010004831 RNA/DNA hybrid binding site [nucleotide binding]; other site 279010004832 active site 279010004833 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 279010004834 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 279010004835 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010004836 CoA-ligase; Region: Ligase_CoA; pfam00549 279010004837 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 279010004838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010004839 CoA-ligase; Region: Ligase_CoA; pfam00549 279010004840 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 279010004841 DNA topoisomerase I; Validated; Region: PRK05582 279010004842 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 279010004843 active site 279010004844 interdomain interaction site; other site 279010004845 putative metal-binding site [ion binding]; other site 279010004846 nucleotide binding site [chemical binding]; other site 279010004847 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 279010004848 domain I; other site 279010004849 DNA binding groove [nucleotide binding] 279010004850 phosphate binding site [ion binding]; other site 279010004851 domain II; other site 279010004852 domain III; other site 279010004853 nucleotide binding site [chemical binding]; other site 279010004854 catalytic site [active] 279010004855 domain IV; other site 279010004856 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 279010004857 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 279010004858 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 279010004859 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 279010004860 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 279010004861 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 279010004862 Int/Topo IB signature motif; other site 279010004863 active site 279010004864 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 279010004865 active site 279010004866 HslU subunit interaction site [polypeptide binding]; other site 279010004867 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 279010004868 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 279010004869 Walker A motif; other site 279010004870 ATP binding site [chemical binding]; other site 279010004871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004872 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 279010004873 transcriptional repressor CodY; Validated; Region: PRK04158 279010004874 CodY GAF-like domain; Region: CodY; pfam06018 279010004875 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010004876 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 279010004877 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010004878 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 279010004879 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010004880 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 279010004881 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 279010004882 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 279010004883 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 279010004884 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 279010004885 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 279010004886 MgtE intracellular N domain; Region: MgtE_N; cl15244 279010004887 FliG C-terminal domain; Region: FliG_C; pfam01706 279010004888 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 279010004889 Plant ATP synthase F0; Region: YMF19; cl07975 279010004890 Flagellar assembly protein FliH; Region: FliH; pfam02108 279010004891 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 279010004892 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 279010004893 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 279010004894 Walker A motif/ATP binding site; other site 279010004895 Walker B motif; other site 279010004896 Flagellar FliJ protein; Region: FliJ; cl09161 279010004897 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 279010004898 MgtE intracellular N domain; Region: MgtE_N; cl15244 279010004899 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 279010004900 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 279010004901 Flagellar hook capping protein; Region: FlgD; cl04347 279010004902 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 279010004903 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010004904 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 279010004905 Flagellar protein (FlbD); Region: FlbD; cl00683 279010004906 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 279010004907 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 279010004908 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 279010004909 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 279010004910 flagellar motor switch protein; Validated; Region: PRK08119 279010004911 CheC-like family; Region: CheC; pfam04509 279010004912 CheC-like family; Region: CheC; pfam04509 279010004913 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 279010004914 Response regulator receiver domain; Region: Response_reg; pfam00072 279010004915 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 279010004916 active site 279010004917 phosphorylation site [posttranslational modification] 279010004918 intermolecular recognition site; other site 279010004919 dimerization interface [polypeptide binding]; other site 279010004920 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 279010004921 FliP family; Region: FliP; cl00593 279010004922 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 279010004923 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 279010004924 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 279010004925 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 279010004926 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 279010004927 FHIPEP family; Region: FHIPEP; pfam00771 279010004928 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 279010004929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010004931 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 279010004932 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 279010004933 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 279010004934 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 279010004935 active site 279010004936 phosphorylation site [posttranslational modification] 279010004937 intermolecular recognition site; other site 279010004938 dimerization interface [polypeptide binding]; other site 279010004939 CheB methylesterase; Region: CheB_methylest; pfam01339 279010004940 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 279010004941 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 279010004942 putative binding surface; other site 279010004943 active site 279010004944 P2 response regulator binding domain; Region: P2; pfam07194 279010004945 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 279010004946 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 279010004947 ATP binding site [chemical binding]; other site 279010004948 Mg2+ binding site [ion binding]; other site 279010004949 G-X-G motif; other site 279010004950 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 279010004951 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 279010004952 putative CheA interaction surface; other site 279010004953 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 279010004954 CheC-like family; Region: CheC; pfam04509 279010004955 CheD chemotactic sensory transduction; Region: CheD; cl00810 279010004956 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 279010004957 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010004958 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279010004959 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 279010004960 DNA binding residues [nucleotide binding] 279010004961 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 279010004962 rRNA interaction site [nucleotide binding]; other site 279010004963 S8 interaction site; other site 279010004964 putative laminin-1 binding site; other site 279010004965 elongation factor Ts; Provisional; Region: tsf; PRK09377 279010004966 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 279010004967 Elongation factor TS; Region: EF_TS; pfam00889 279010004968 Elongation factor TS; Region: EF_TS; pfam00889 279010004969 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 279010004970 putative nucleotide binding site [chemical binding]; other site 279010004971 uridine monophosphate binding site [chemical binding]; other site 279010004972 homohexameric interface [polypeptide binding]; other site 279010004973 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 279010004974 hinge region; other site 279010004975 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 279010004976 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 279010004977 catalytic residue [active] 279010004978 putative FPP diphosphate binding site; other site 279010004979 putative FPP binding hydrophobic cleft; other site 279010004980 dimer interface [polypeptide binding]; other site 279010004981 putative IPP diphosphate binding site; other site 279010004982 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 279010004983 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 279010004984 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 279010004985 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 279010004986 RIP metalloprotease RseP; Region: TIGR00054 279010004987 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 279010004988 active site 279010004989 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 279010004990 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 279010004991 protein binding site [polypeptide binding]; other site 279010004992 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 279010004993 putative substrate binding region [chemical binding]; other site 279010004994 prolyl-tRNA synthetase; Provisional; Region: PRK09194 279010004995 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 279010004996 dimer interface [polypeptide binding]; other site 279010004997 motif 1; other site 279010004998 active site 279010004999 motif 2; other site 279010005000 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 279010005001 putative deacylase active site [active] 279010005002 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 279010005003 active site 279010005004 motif 3; other site 279010005005 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 279010005006 anticodon binding site; other site 279010005007 DNA polymerase III PolC; Validated; Region: polC; PRK00448 279010005008 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 279010005009 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 279010005010 generic binding surface II; other site 279010005011 generic binding surface I; other site 279010005012 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 279010005013 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 279010005014 active site 279010005015 substrate binding site [chemical binding]; other site 279010005016 catalytic site [active] 279010005017 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 279010005018 endoglucanase; Region: PLN02420 279010005019 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 279010005020 Cellulose binding domain; Region: CBM_3; cl03026 279010005021 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 279010005022 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 279010005023 Domain of unknown function; Region: DUF291; pfam03442 279010005024 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 279010005025 ribosome maturation protein RimP; Reviewed; Region: PRK00092 279010005026 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 279010005027 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 279010005028 Sm1 motif; other site 279010005029 predicted subunit interaction site [polypeptide binding]; other site 279010005030 RNA binding pocket [nucleotide binding]; other site 279010005031 Sm2 motif; other site 279010005032 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 279010005033 NusA N-terminal domain; Region: NusA_N; pfam08529 279010005034 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 279010005035 RNA binding site [nucleotide binding]; other site 279010005036 homodimer interface [polypeptide binding]; other site 279010005037 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 279010005038 G-X-X-G motif; other site 279010005039 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 279010005040 putative RNA binding cleft [nucleotide binding]; other site 279010005041 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 279010005042 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 279010005043 translation initiation factor IF-2; Region: IF-2; TIGR00487 279010005044 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 279010005045 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 279010005046 G1 box; other site 279010005047 putative GEF interaction site [polypeptide binding]; other site 279010005048 GTP/Mg2+ binding site [chemical binding]; other site 279010005049 Switch I region; other site 279010005050 G2 box; other site 279010005051 G3 box; other site 279010005052 Switch II region; other site 279010005053 G4 box; other site 279010005054 G5 box; other site 279010005055 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 279010005056 Translation-initiation factor 2; Region: IF-2; pfam11987 279010005057 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 279010005058 Protein of unknown function (DUF503); Region: DUF503; cl00669 279010005059 Ribosome-binding factor A; Region: RBFA; cl00542 279010005060 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 279010005061 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 279010005062 RNA binding site [nucleotide binding]; other site 279010005063 active site 279010005064 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 279010005065 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 279010005066 active site 279010005067 Riboflavin kinase; Region: Flavokinase; cl03312 279010005068 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 279010005069 16S/18S rRNA binding site [nucleotide binding]; other site 279010005070 S13e-L30e interaction site [polypeptide binding]; other site 279010005071 25S rRNA binding site [nucleotide binding]; other site 279010005072 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 279010005073 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 279010005074 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 279010005075 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 279010005076 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 279010005077 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 279010005078 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 279010005079 putative nucleic acid binding region [nucleotide binding]; other site 279010005080 G-X-X-G motif; other site 279010005081 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 279010005082 RNA binding site [nucleotide binding]; other site 279010005083 domain interface; other site 279010005084 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 279010005085 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010005086 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279010005087 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279010005088 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279010005089 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 279010005090 dipicolinic acid synthetase, A subunit; Region: spore_dpaA; TIGR02853 279010005091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005092 Flavoprotein; Region: Flavoprotein; cl08021 279010005093 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 279010005094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005095 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 279010005096 aspartate kinase I; Reviewed; Region: PRK08210 279010005097 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 279010005098 nucleotide binding site [chemical binding]; other site 279010005099 substrate binding site [chemical binding]; other site 279010005100 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 279010005101 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 279010005102 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 279010005103 dihydrodipicolinate synthase; Region: dapA; TIGR00674 279010005104 dimer interface [polypeptide binding]; other site 279010005105 active site 279010005106 catalytic residue [active] 279010005107 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 279010005108 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010005109 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 279010005110 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; cl14780 279010005111 active site 279010005112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010005113 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 279010005114 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 279010005115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010005116 DNA-binding site [nucleotide binding]; DNA binding site 279010005117 UTRA domain; Region: UTRA; cl01230 279010005118 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 279010005119 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010005120 putative substrate translocation pore; other site 279010005121 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279010005122 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279010005123 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279010005124 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279010005125 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279010005126 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279010005127 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 279010005128 classical (c) SDRs; Region: SDR_c; cd05233 279010005129 NAD(P) binding site [chemical binding]; other site 279010005130 active site 279010005131 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 279010005132 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 279010005133 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 279010005134 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 279010005135 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005136 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 279010005137 competence damage-inducible protein A; Provisional; Region: PRK00549 279010005138 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 279010005139 putative MPT binding site; other site 279010005140 Competence-damaged protein; Region: CinA; cl00666 279010005141 recombinase A; Provisional; Region: recA; PRK09354 279010005142 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 279010005143 hexamer interface [polypeptide binding]; other site 279010005144 Walker A motif; other site 279010005145 ATP binding site [chemical binding]; other site 279010005146 Walker B motif; other site 279010005147 phosphodiesterase; Provisional; Region: PRK12704 279010005148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010005149 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010005150 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 279010005151 putative active site [active] 279010005152 metal binding site [ion binding]; metal-binding site 279010005153 homodimer binding site [polypeptide binding]; other site 279010005154 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 279010005155 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 279010005156 active site 279010005157 dimer interface [polypeptide binding]; other site 279010005158 Threonine dehydrogenase; Region: TDH; cd05281 279010005159 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 279010005160 structural Zn binding site [ion binding]; other site 279010005161 catalytic Zn binding site [ion binding]; other site 279010005162 tetramer interface [polypeptide binding]; other site 279010005163 NADP binding site [chemical binding]; other site 279010005164 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 279010005165 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 279010005166 substrate-cofactor binding pocket; other site 279010005167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010005168 catalytic residue [active] 279010005169 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 279010005170 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 279010005171 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 279010005172 FeS/SAM binding site; other site 279010005173 TRAM domain; Region: TRAM; cl01282 279010005174 Protein of unknown function (DUF964); Region: DUF964; cl01483 279010005175 Outer spore coat protein E (CotE); Region: CotE; pfam10628 279010005176 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 279010005177 MutS domain I; Region: MutS_I; pfam01624 279010005178 MutS domain II; Region: MutS_II; pfam05188 279010005179 MutS family domain IV; Region: MutS_IV; pfam05190 279010005180 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 279010005181 Walker A/P-loop; other site 279010005182 ATP binding site [chemical binding]; other site 279010005183 Q-loop/lid; other site 279010005184 ABC transporter signature motif; other site 279010005185 Walker B; other site 279010005186 D-loop; other site 279010005187 H-loop/switch region; other site 279010005188 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 279010005189 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 279010005190 ATP binding site [chemical binding]; other site 279010005191 Mg2+ binding site [ion binding]; other site 279010005192 G-X-G motif; other site 279010005193 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 279010005194 ATP binding site [chemical binding]; other site 279010005195 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 279010005196 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279010005197 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 279010005198 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 279010005199 P-loop, Walker A motif; other site 279010005200 Base recognition motif; other site 279010005201 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 279010005202 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 279010005203 dimer interface [polypeptide binding]; other site 279010005204 [2Fe-2S] cluster binding site [ion binding]; other site 279010005205 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010005206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010005207 Coenzyme A binding pocket [chemical binding]; other site 279010005208 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 279010005209 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 279010005210 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 279010005211 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 279010005212 Domain of unknown function (DUF74); Region: DUF74; cl00426 279010005213 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010005214 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010005215 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 279010005216 glycosyltransferase, MGT family; Region: MGT; TIGR01426 279010005217 active site 279010005218 TDP-binding site; other site 279010005219 acceptor substrate-binding pocket; other site 279010005220 homodimer interface [polypeptide binding]; other site 279010005221 ethanolamine permease; Region: 2A0305; TIGR00908 279010005222 Amino acid permease; Region: AA_permease; cl00524 279010005223 Coat F domain; Region: Coat_F; cl02368 279010005224 Coat F domain; Region: Coat_F; cl02368 279010005225 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 279010005226 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 279010005227 putative peptidoglycan binding site; other site 279010005228 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 279010005229 putative peptidoglycan binding site; other site 279010005230 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 279010005231 active site 279010005232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005233 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005234 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 279010005235 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279010005236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005237 NAD(P) binding site [chemical binding]; other site 279010005238 active site 279010005239 OsmC-like protein; Region: OsmC; cl00767 279010005240 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010005241 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010005242 YmaF family; Region: YmaF; pfam12788 279010005243 IPP transferase; Region: IPPT; cl00403 279010005244 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 279010005245 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 279010005246 Sm1 motif; other site 279010005247 intra - hexamer interaction site; other site 279010005248 inter - hexamer interaction site [polypeptide binding]; other site 279010005249 nucleotide binding pocket [chemical binding]; other site 279010005250 Sm2 motif; other site 279010005251 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010005252 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 279010005253 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 279010005254 Class I ribonucleotide reductase; Region: RNR_I; cd01679 279010005255 active site 279010005256 dimer interface [polypeptide binding]; other site 279010005257 catalytic residues [active] 279010005258 effector binding site; other site 279010005259 R2 peptide binding site; other site 279010005260 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 279010005261 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 279010005262 dimer interface [polypeptide binding]; other site 279010005263 putative radical transfer pathway; other site 279010005264 diiron center [ion binding]; other site 279010005265 tyrosyl radical; other site 279010005266 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 279010005267 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010005268 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 279010005269 trimerization site [polypeptide binding]; other site 279010005270 active site 279010005271 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279010005272 metal binding site 2 [ion binding]; metal-binding site 279010005273 putative DNA binding helix; other site 279010005274 metal binding site 1 [ion binding]; metal-binding site 279010005275 dimer interface [polypeptide binding]; other site 279010005276 structural Zn2+ binding site [ion binding]; other site 279010005277 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010005278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010005279 DNA-binding site [nucleotide binding]; DNA binding site 279010005280 FCD domain; Region: FCD; cl11656 279010005281 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 279010005282 active site 279010005283 metal binding site [ion binding]; metal-binding site 279010005284 Sporulation related domain; Region: SPOR; cl10051 279010005285 Protein of unknown function, DUF606; Region: DUF606; cl01273 279010005286 Protein of unknown function, DUF606; Region: DUF606; cl01273 279010005287 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005288 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005289 OsmC-like protein; Region: OsmC; cl00767 279010005290 Sodium:solute symporter family; Region: SSF; cl00456 279010005291 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 279010005292 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 279010005293 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 279010005294 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 279010005295 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 279010005296 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 279010005297 stage V sporulation protein K; Region: spore_V_K; TIGR02881 279010005298 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 279010005299 Walker A motif; other site 279010005300 ATP binding site [chemical binding]; other site 279010005301 Walker B motif; other site 279010005302 arginine finger; other site 279010005303 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 279010005304 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 279010005305 G1 box; other site 279010005306 GTP/Mg2+ binding site [chemical binding]; other site 279010005307 Switch I region; other site 279010005308 G2 box; other site 279010005309 G3 box; other site 279010005310 Switch II region; other site 279010005311 G4 box; other site 279010005312 G5 box; other site 279010005313 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 279010005314 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 279010005315 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010005316 catalytic residue [active] 279010005317 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 279010005318 DNA binding residues [nucleotide binding] 279010005319 glutamine synthetase, type I; Region: GlnA; TIGR00653 279010005320 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 279010005321 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 279010005322 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 279010005323 nucleotide binding site/active site [active] 279010005324 HIT family signature motif; other site 279010005325 catalytic residue [active] 279010005326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279010005327 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 279010005328 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; cl12011 279010005329 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010005330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010005331 Coenzyme A binding pocket [chemical binding]; other site 279010005332 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005333 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005334 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010005335 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 279010005336 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 279010005337 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010005338 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 279010005339 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 279010005340 dimanganese center [ion binding]; other site 279010005341 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 279010005342 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 279010005343 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010005344 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010005345 Coenzyme A binding pocket [chemical binding]; other site 279010005346 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010005347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005348 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005349 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005350 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 279010005351 dimer interface [polypeptide binding]; other site 279010005352 FMN binding site [chemical binding]; other site 279010005353 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 279010005354 Zn binding site [ion binding]; other site 279010005355 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 279010005356 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010005357 Zn binding site [ion binding]; other site 279010005358 Flavin Reductases; Region: FlaRed; cl00801 279010005359 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010005360 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; cd02106 279010005361 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 279010005362 dimerization interface [polypeptide binding]; other site 279010005363 active site 279010005364 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005365 LexA repressor; Validated; Region: PRK00215 279010005366 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 279010005367 Catalytic site [active] 279010005368 cell division suppressor protein YneA; Provisional; Region: PRK14125 279010005369 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; cl00107 279010005370 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 279010005371 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 279010005372 catalytic residues [active] 279010005373 catalytic nucleophile [active] 279010005374 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 279010005375 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 279010005376 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 279010005377 TPP-binding site [chemical binding]; other site 279010005378 dimer interface [polypeptide binding]; other site 279010005379 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 279010005380 PYR/PP interface [polypeptide binding]; other site 279010005381 dimer interface [polypeptide binding]; other site 279010005382 TPP binding site [chemical binding]; other site 279010005383 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010005384 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 279010005385 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 279010005386 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 279010005387 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 279010005388 Response regulator receiver domain; Region: Response_reg; pfam00072 279010005389 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 279010005390 active site 279010005391 phosphorylation site [posttranslational modification] 279010005392 intermolecular recognition site; other site 279010005393 dimerization interface [polypeptide binding]; other site 279010005394 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 279010005395 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 279010005396 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 279010005397 putative dimer interface [polypeptide binding]; other site 279010005398 Small acid-soluble spore protein P family; Region: SspP; cl12105 279010005399 Small acid-soluble spore protein O family; Region: SspO; cl07943 279010005400 aconitate hydratase; Validated; Region: PRK09277 279010005401 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 279010005402 substrate binding site [chemical binding]; other site 279010005403 ligand binding site [chemical binding]; other site 279010005404 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 279010005405 substrate binding site [chemical binding]; other site 279010005406 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 279010005407 catalytic residues [active] 279010005408 Small acid-soluble spore protein N family; Region: SspN; cl11659 279010005409 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 279010005410 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 279010005411 active site 279010005412 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 279010005413 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 279010005414 putative active site [active] 279010005415 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 279010005416 Domain of unknown function (DUF205); Region: DUF205; cl00410 279010005417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005418 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 279010005419 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 279010005420 ATP binding site [chemical binding]; other site 279010005421 Mg2+ binding site [ion binding]; other site 279010005422 G-X-G motif; other site 279010005423 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 279010005424 anchoring element; other site 279010005425 dimer interface [polypeptide binding]; other site 279010005426 ATP binding site [chemical binding]; other site 279010005427 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 279010005428 active site 279010005429 putative metal-binding site [ion binding]; other site 279010005430 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 279010005431 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 279010005432 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 279010005433 CAP-like domain; other site 279010005434 active site 279010005435 primary dimer interface [polypeptide binding]; other site 279010005436 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010005437 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010005438 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279010005439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010005440 DNA-binding site [nucleotide binding]; DNA binding site 279010005441 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010005442 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 279010005443 putative dimerization interface [polypeptide binding]; other site 279010005444 putative ligand binding site [chemical binding]; other site 279010005445 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 279010005446 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 279010005447 putative N- and C-terminal domain interface [polypeptide binding]; other site 279010005448 putative active site [active] 279010005449 putative MgATP binding site [chemical binding]; other site 279010005450 catalytic site [active] 279010005451 metal binding site [ion binding]; metal-binding site 279010005452 putative carbohydrate binding site [chemical binding]; other site 279010005453 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 279010005454 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; cd00398 279010005455 intersubunit interface [polypeptide binding]; other site 279010005456 active site 279010005457 Zn2+ binding site [ion binding]; other site 279010005458 L-arabinose isomerase; Provisional; Region: PRK02929 279010005459 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 279010005460 hexamer (dimer of trimers) interface [polypeptide binding]; other site 279010005461 trimer interface [polypeptide binding]; other site 279010005462 substrate binding site [chemical binding]; other site 279010005463 Mn binding site [ion binding]; other site 279010005464 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 279010005465 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 279010005466 putative substrate translocation pore; other site 279010005467 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 279010005468 acetoin reductase; Validated; Region: PRK08643 279010005469 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 279010005470 NAD binding site [chemical binding]; other site 279010005471 homotetramer interface [polypeptide binding]; other site 279010005472 homodimer interface [polypeptide binding]; other site 279010005473 active site 279010005474 substrate binding site [chemical binding]; other site 279010005475 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010005476 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 279010005477 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 279010005478 nitrate reductase, beta subunit; Region: narH; TIGR01660 279010005479 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 279010005480 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 279010005481 [4Fe-4S] binding site [ion binding]; other site 279010005482 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 279010005483 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 279010005484 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 279010005485 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 279010005486 molybdopterin cofactor binding site; other site 279010005487 Uncharacterized conserved protein [Function unknown]; Region: COG2461 279010005488 Family of unknown function (DUF438); Region: DUF438; pfam04282 279010005489 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 279010005490 radical SAM protein, BA_1875 family; Region: sam_11; TIGR04053 279010005491 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 279010005492 FeS/SAM binding site; other site 279010005493 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 279010005494 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 279010005495 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 279010005496 ligand binding site [chemical binding]; other site 279010005497 flexible hinge region; other site 279010005498 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 279010005499 putative switch regulator; other site 279010005500 non-specific DNA interactions [nucleotide binding]; other site 279010005501 DNA binding site [nucleotide binding] 279010005502 sequence specific DNA binding site [nucleotide binding]; other site 279010005503 putative cAMP binding site [chemical binding]; other site 279010005504 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 279010005505 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 279010005506 putative substrate translocation pore; other site 279010005507 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 279010005508 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279010005509 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 279010005510 ligand binding site [chemical binding]; other site 279010005511 flexible hinge region; other site 279010005512 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005513 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 279010005514 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 279010005515 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 279010005516 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; cl11605 279010005517 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 279010005518 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 279010005519 Cellulose binding domain; Region: CBM_3; cl03026 279010005520 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010005521 isoform II; Region: PAF-AH_p_II; pfam03403 279010005522 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 279010005523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005524 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 279010005525 S-adenosylmethionine binding site [chemical binding]; other site 279010005526 Rrf2 family protein; Region: rrf2_super; TIGR00738 279010005527 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005528 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 279010005529 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 279010005530 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 279010005531 putative NAD(P) binding site [chemical binding]; other site 279010005532 putative substrate binding site [chemical binding]; other site 279010005533 catalytic Zn binding site [ion binding]; other site 279010005534 structural Zn binding site [ion binding]; other site 279010005535 dimer interface [polypeptide binding]; other site 279010005536 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279010005537 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 279010005538 DNA binding residues [nucleotide binding] 279010005539 putative dimer interface [polypeptide binding]; other site 279010005540 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 279010005541 dimerization domain swap beta strand [polypeptide binding]; other site 279010005542 regulatory protein interface [polypeptide binding]; other site 279010005543 active site 279010005544 regulatory phosphorylation site [posttranslational modification]; other site 279010005545 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010005546 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 279010005547 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 279010005548 substrate binding site [chemical binding]; other site 279010005549 oxyanion hole (OAH) forming residues; other site 279010005550 trimer interface [polypeptide binding]; other site 279010005551 enoyl-CoA hydratase; Provisional; Region: PRK07658 279010005552 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 279010005553 substrate binding site [chemical binding]; other site 279010005554 oxyanion hole (OAH) forming residues; other site 279010005555 trimer interface [polypeptide binding]; other site 279010005556 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 279010005557 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010005558 tetrameric interface [polypeptide binding]; other site 279010005559 NAD binding site [chemical binding]; other site 279010005560 catalytic residues [active] 279010005561 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 279010005562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005563 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279010005564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010005565 active site 279010005566 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 279010005567 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 279010005568 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 279010005569 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 279010005570 P-loop; other site 279010005571 active site 279010005572 phosphorylation site [posttranslational modification] 279010005573 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010005574 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 279010005575 active site 279010005576 phosphorylation site [posttranslational modification] 279010005577 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 279010005578 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005579 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005580 PRD domain; Region: PRD; cl15445 279010005581 PRD domain; Region: PRD; cl15445 279010005582 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 279010005583 P-loop; other site 279010005584 active site 279010005585 phosphorylation site [posttranslational modification] 279010005586 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 279010005587 active site 279010005588 phosphorylation site [posttranslational modification] 279010005589 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010005590 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 279010005591 Walker A/P-loop; other site 279010005592 ATP binding site [chemical binding]; other site 279010005593 Q-loop/lid; other site 279010005594 ABC transporter signature motif; other site 279010005595 Walker B; other site 279010005596 D-loop; other site 279010005597 H-loop/switch region; other site 279010005598 Predicted transcriptional regulators [Transcription]; Region: COG1725 279010005599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010005600 DNA-binding site [nucleotide binding]; DNA binding site 279010005601 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 279010005602 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279010005603 putative NAD(P) binding site [chemical binding]; other site 279010005604 active site 279010005605 mannonate dehydratase; Provisional; Region: PRK03906 279010005606 mannonate dehydratase; Region: uxuA; TIGR00695 279010005607 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 279010005608 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 279010005609 putative active site [active] 279010005610 putative catalytic site [active] 279010005611 DctM-like transporters; Region: DctM; pfam06808 279010005612 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010005613 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 279010005614 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 279010005615 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 279010005616 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010005617 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010005618 DNA binding site [nucleotide binding] 279010005619 domain linker motif; other site 279010005620 Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_hexuronate_repressor_like; cd06272 279010005621 putative dimerization interface [polypeptide binding]; other site 279010005622 putative ligand binding site [chemical binding]; other site 279010005623 Low molecular weight phosphatase family; Region: LMWPc; cd00115 279010005624 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 279010005625 active site 279010005626 arsenical pump membrane protein; Provisional; Region: PRK15445 279010005627 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 279010005628 transmembrane helices; other site 279010005629 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 279010005630 dimerization interface [polypeptide binding]; other site 279010005631 putative DNA binding site [nucleotide binding]; other site 279010005632 putative Zn2+ binding site [ion binding]; other site 279010005633 Protein of unknown function (DUF419); Region: DUF419; cl15265 279010005634 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 279010005635 putative catalytic site [active] 279010005636 putative metal binding site [ion binding]; other site 279010005637 putative phosphate binding site [ion binding]; other site 279010005638 Sugar transport protein; Region: Sugar_transport; pfam06800 279010005639 Uncharacterised BCR, COG1649; Region: DUF187; cl15398 279010005640 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 279010005641 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 279010005642 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 279010005643 FeS/SAM binding site; other site 279010005644 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 279010005645 Pyruvate formate lyase 1; Region: PFL1; cd01678 279010005646 coenzyme A binding site [chemical binding]; other site 279010005647 active site 279010005648 catalytic residues [active] 279010005649 glycine loop; other site 279010005650 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 279010005651 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 279010005652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005653 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 279010005654 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279010005655 acetyl-CoA synthetase; Provisional; Region: PRK00174 279010005656 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 279010005657 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010005658 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010005659 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 279010005660 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010005661 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010005662 enoyl-CoA hydratase; Provisional; Region: PRK07657 279010005663 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 279010005664 substrate binding site [chemical binding]; other site 279010005665 oxyanion hole (OAH) forming residues; other site 279010005666 trimer interface [polypeptide binding]; other site 279010005667 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 279010005668 active site 279010005669 catalytic residues [active] 279010005670 metal binding site [ion binding]; metal-binding site 279010005671 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 279010005672 carboxyltransferase (CT) interaction site; other site 279010005673 biotinylation site [posttranslational modification]; other site 279010005674 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 279010005675 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010005676 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010005677 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 279010005678 AMP-binding domain protein; Validated; Region: PRK08315 279010005679 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010005680 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010005681 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010005682 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 279010005683 FAD binding site [chemical binding]; other site 279010005684 homotetramer interface [polypeptide binding]; other site 279010005685 substrate binding pocket [chemical binding]; other site 279010005686 catalytic base [active] 279010005687 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010005688 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005689 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 279010005690 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 279010005691 putative catalytic cysteine [active] 279010005692 gamma-glutamyl kinase; Provisional; Region: PRK13402 279010005693 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 279010005694 nucleotide binding site [chemical binding]; other site 279010005695 homotetrameric interface [polypeptide binding]; other site 279010005696 putative phosphate binding site [ion binding]; other site 279010005697 putative allosteric binding site; other site 279010005698 PUA domain; Region: PUA; cl00607 279010005699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005700 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 279010005701 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010005702 Phosphate transporter family; Region: PHO4; cl00396 279010005703 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 279010005704 Active Sites [active] 279010005705 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 279010005706 Uncharacterized conserved protein [Function unknown]; Region: COG1284 279010005707 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010005708 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 279010005709 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 279010005710 active site pocket [active] 279010005711 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 279010005712 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010005713 putative substrate translocation pore; other site 279010005714 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 279010005715 Ligand binding site; other site 279010005716 Putative Catalytic site; other site 279010005717 DXD motif; other site 279010005718 glutamate synthases, NADH/NADPH, small subunit; Region: GOGAT_sm_gam; TIGR01317 279010005719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005720 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 279010005721 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 279010005722 active site 279010005723 dimer interface [polypeptide binding]; other site 279010005724 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 279010005725 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 279010005726 active site 279010005727 FMN binding site [chemical binding]; other site 279010005728 substrate binding site [chemical binding]; other site 279010005729 3Fe-4S cluster binding site [ion binding]; other site 279010005730 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 279010005731 domain interface; other site 279010005732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010005733 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005734 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 279010005735 putative dimerization interface [polypeptide binding]; other site 279010005736 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 279010005737 Sulfatase; Region: Sulfatase; cl10460 279010005738 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010005739 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010005741 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010005742 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010005743 Walker A/P-loop; other site 279010005744 ATP binding site [chemical binding]; other site 279010005745 Q-loop/lid; other site 279010005746 ABC transporter signature motif; other site 279010005747 Walker B; other site 279010005748 D-loop; other site 279010005749 H-loop/switch region; other site 279010005750 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010005751 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010005752 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 279010005753 Walker A/P-loop; other site 279010005754 ATP binding site [chemical binding]; other site 279010005755 Q-loop/lid; other site 279010005756 ABC transporter signature motif; other site 279010005757 Walker B; other site 279010005758 D-loop; other site 279010005759 H-loop/switch region; other site 279010005760 Cytochrome P450; Region: p450; cl12078 279010005761 classical (c) SDRs; Region: SDR_c; cd05233 279010005762 NAD(P) binding site [chemical binding]; other site 279010005763 active site 279010005764 phosphoenolpyruvate synthase; Validated; Region: PRK06241 279010005765 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 279010005766 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 279010005767 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279010005768 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 279010005769 putative substrate translocation pore; other site 279010005770 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 279010005771 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 279010005772 putative [4Fe-4S] binding site [ion binding]; other site 279010005773 putative molybdopterin cofactor binding site [chemical binding]; other site 279010005774 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 279010005775 putative molybdopterin cofactor binding site; other site 279010005776 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010005777 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005778 Amino acid permease; Region: AA_permease; cl00524 279010005779 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 279010005780 Amino acid permease; Region: AA_permease; cl00524 279010005781 Amino acid permease; Region: AA_permease; cl00524 279010005782 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 279010005783 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010005784 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 279010005785 ABC transporter; Region: ABC_tran_2; pfam12848 279010005786 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 279010005787 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010005788 dimerization interface [polypeptide binding]; other site 279010005789 ligand (aspartate) binding pocket [chemical binding]; other site 279010005790 Cache domain; Region: Cache_1; pfam02743 279010005791 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 279010005792 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 279010005793 dimerization interface [polypeptide binding]; other site 279010005794 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010005795 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cd00181 279010005796 dimerization interface [polypeptide binding]; other site 279010005797 ligand (aspartate) binding pocket [chemical binding]; other site 279010005798 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 279010005799 dimer interface [polypeptide binding]; other site 279010005800 putative tRNA-binding site [nucleotide binding]; other site 279010005801 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 279010005802 active site 279010005803 catalytic triad [active] 279010005804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005805 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005806 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279010005807 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005808 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010005809 DinB superfamily; Region: DinB_2; cl00986 279010005810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010005811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010005812 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010005813 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 279010005814 Predicted transcriptional regulator [Transcription]; Region: COG2378 279010005815 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005816 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 279010005817 dimerization interface [polypeptide binding]; other site 279010005818 putative DNA binding site [nucleotide binding]; other site 279010005819 putative Zn2+ binding site [ion binding]; other site 279010005820 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010005821 Amino acid permease; Region: AA_permease; cl00524 279010005822 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 279010005823 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279010005824 catalytic residue [active] 279010005825 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 279010005826 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 279010005827 NAD(P) binding site [chemical binding]; other site 279010005828 homodimer interface [polypeptide binding]; other site 279010005829 substrate binding site [chemical binding]; other site 279010005830 active site 279010005831 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 279010005832 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010005833 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 279010005834 Protein of unknown function (DUF420); Region: DUF420; cl00989 279010005835 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010005836 putative transporter; Provisional; Region: PRK10484 279010005837 Sodium:solute symporter family; Region: SSF; cl00456 279010005838 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 279010005839 putative peptidoglycan binding site; other site 279010005840 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 279010005841 putative peptidoglycan binding site; other site 279010005842 3D domain; Region: 3D; cl01439 279010005843 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 279010005844 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 279010005845 ATP binding site [chemical binding]; other site 279010005846 putative Mg++ binding site [ion binding]; other site 279010005847 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 279010005848 nucleotide binding region [chemical binding]; other site 279010005849 ATP-binding site [chemical binding]; other site 279010005850 RQC domain; Region: RQC; cl09632 279010005851 HRDC domain; Region: HRDC; cl02578 279010005852 Protein of unknown function (DUF419); Region: DUF419; cl15265 279010005853 Nuclease-related domain; Region: NERD; pfam08378 279010005854 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 279010005855 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 279010005856 Ubiquitin-like proteins; Region: UBQ; cl00155 279010005857 charged pocket; other site 279010005858 hydrophobic patch; other site 279010005859 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 279010005860 4Fe-4S binding domain; Region: Fer4; cl02805 279010005861 4Fe-4S binding domain; Region: Fer4; cl02805 279010005862 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 279010005863 [4Fe-4S] binding site [ion binding]; other site 279010005864 molybdopterin cofactor binding site; other site 279010005865 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 279010005866 molybdopterin cofactor binding site; other site 279010005867 Flagellar protein YcgR; Region: YcgR_2; pfam12945 279010005868 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 279010005869 PilZ domain; Region: PilZ; cl01260 279010005870 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 279010005871 V-type ATP synthase subunit I; Validated; Region: PRK05771 279010005872 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 279010005873 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 279010005874 hypothetical protein; Provisional; Region: PRK08204 279010005875 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 279010005876 active site 279010005877 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 279010005878 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 279010005879 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279010005880 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 279010005881 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 279010005882 LysE type translocator; Region: LysE; cl00565 279010005883 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 279010005884 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 279010005885 nudix motif; other site 279010005886 phosphoenolpyruvate synthase; Validated; Region: PRK06241 279010005887 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 279010005888 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 279010005889 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 279010005890 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005891 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 279010005892 DinB superfamily; Region: DinB_2; cl00986 279010005893 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010005894 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 279010005895 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 279010005896 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 279010005897 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010005898 NAD(P) binding site [chemical binding]; other site 279010005899 catalytic residues [active] 279010005900 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010005901 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 279010005902 putative substrate translocation pore; other site 279010005903 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010005904 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010005905 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 279010005906 active site 279010005907 catalytic motif [active] 279010005908 Zn binding site [ion binding]; other site 279010005909 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 279010005910 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 279010005911 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 279010005912 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 279010005913 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 279010005914 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 279010005915 Membrane transport protein; Region: Mem_trans; cl09117 279010005916 bile acid transporter; Region: bass; TIGR00841 279010005917 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 279010005918 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 279010005919 E3 interaction surface; other site 279010005920 lipoyl attachment site [posttranslational modification]; other site 279010005921 e3 binding domain; Region: E3_binding; pfam02817 279010005922 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 279010005923 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 279010005924 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 279010005925 TPP-binding site [chemical binding]; other site 279010005926 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 279010005927 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 279010005928 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 279010005929 metal ion-dependent adhesion site (MIDAS); other site 279010005930 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 279010005931 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 279010005932 Walker A motif; other site 279010005933 ATP binding site [chemical binding]; other site 279010005934 Walker B motif; other site 279010005935 arginine finger; other site 279010005936 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 279010005937 E-class dimer interface [polypeptide binding]; other site 279010005938 P-class dimer interface [polypeptide binding]; other site 279010005939 active site 279010005940 Cu2+ binding site [ion binding]; other site 279010005941 Zn2+ binding site [ion binding]; other site 279010005942 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 279010005943 putative peptidoglycan binding site; other site 279010005944 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 279010005945 putative peptidoglycan binding site; other site 279010005946 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 279010005947 putative peptidoglycan binding site; other site 279010005948 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 279010005949 putative peptidoglycan binding site; other site 279010005950 NlpC/P60 family; Region: NLPC_P60; cl11438 279010005951 multidrug efflux protein; Reviewed; Region: PRK01766 279010005952 MatE; Region: MatE; cl10513 279010005953 MatE; Region: MatE; cl10513 279010005954 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 279010005955 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 279010005956 Predicted permeases [General function prediction only]; Region: RarD; COG2962 279010005957 EamA-like transporter family; Region: EamA; cl01037 279010005958 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 279010005959 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 279010005960 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 279010005961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010005962 NAD(P) binding site [chemical binding]; other site 279010005963 active site 279010005964 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005965 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 279010005966 dimer interface [polypeptide binding]; other site 279010005967 FMN binding site [chemical binding]; other site 279010005968 Predicted esterase [General function prediction only]; Region: COG0400 279010005969 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 279010005970 nucleophilic elbow; other site 279010005971 catalytic triad; other site 279010005972 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 279010005973 Sodium:solute symporter family; Region: SSF; cl00456 279010005974 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005975 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010005976 putative transposase OrfB; Reviewed; Region: PHA02517 279010005977 Integrase core domain; Region: rve; cl01316 279010005978 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 279010005979 C-terminal peptidase (prc); Region: prc; TIGR00225 279010005980 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 279010005981 protein binding site [polypeptide binding]; other site 279010005982 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 279010005983 Catalytic dyad [active] 279010005984 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010005985 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 279010005986 S-adenosylmethionine binding site [chemical binding]; other site 279010005987 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 279010005988 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 279010005989 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 279010005990 Predicted permease; Region: DUF318; cl00487 279010005991 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 279010005992 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 279010005993 active site 279010005994 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 279010005995 uncharacterized protein, YokU family; Region: YokU_near_AblA; TIGR03829 279010005996 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 279010005997 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 279010005998 FeS/SAM binding site; other site 279010005999 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 279010006000 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 279010006001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010006002 Coenzyme A binding pocket [chemical binding]; other site 279010006003 acetylornithine deacetylase; Validated; Region: PRK06915 279010006004 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 279010006005 metal binding site [ion binding]; metal-binding site 279010006006 dimer interface [polypeptide binding]; other site 279010006007 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 279010006008 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 279010006009 hypothetical protein; Provisional; Region: PRK06917 279010006010 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 279010006011 inhibitor-cofactor binding pocket; inhibition site 279010006012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006013 catalytic residue [active] 279010006014 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010006015 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 279010006016 putative substrate translocation pore; other site 279010006017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010006018 Coenzyme A binding pocket [chemical binding]; other site 279010006019 SelR domain; Region: SelR; cl00369 279010006020 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 279010006021 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006022 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 279010006023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279010006024 metal binding site [ion binding]; metal-binding site 279010006025 active site 279010006026 I-site; other site 279010006027 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 279010006028 MatE; Region: MatE; cl10513 279010006029 MatE; Region: MatE; cl10513 279010006030 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 279010006031 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 279010006032 active site 279010006033 catalytic triad [active] 279010006034 oxyanion hole [active] 279010006035 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 279010006036 Cu(I) binding site [ion binding]; other site 279010006037 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 279010006038 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 279010006039 threonine dehydratase; Validated; Region: PRK08639 279010006040 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 279010006041 tetramer interface [polypeptide binding]; other site 279010006042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006043 catalytic residue [active] 279010006044 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 279010006045 putative Ile/Val binding site [chemical binding]; other site 279010006046 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 279010006047 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 279010006048 Walker A motif; other site 279010006049 ATP binding site [chemical binding]; other site 279010006050 Walker B motif; other site 279010006051 arginine finger; other site 279010006052 Haemolysin-III related; Region: HlyIII; cl03831 279010006053 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010006054 putative acyl-acceptor binding pocket; other site 279010006055 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 279010006056 folate binding site [chemical binding]; other site 279010006057 NADP+ binding site [chemical binding]; other site 279010006058 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 279010006059 tetramer interfaces [polypeptide binding]; other site 279010006060 binuclear metal-binding site [ion binding]; other site 279010006061 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; cl12011 279010006062 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 279010006063 Dehydratase family; Region: ILVD_EDD; cl00340 279010006064 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 279010006065 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 279010006066 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 279010006067 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 279010006068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010006069 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 279010006070 catalytic residues [active] 279010006071 dimer interface [polypeptide binding]; other site 279010006072 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 279010006073 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 279010006074 Potassium binding sites [ion binding]; other site 279010006075 Cesium cation binding sites [ion binding]; other site 279010006076 homoserine O-succinyltransferase; Provisional; Region: PRK05368 279010006077 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 279010006078 proposed active site lysine [active] 279010006079 conserved cys residue [active] 279010006080 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 279010006081 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 279010006082 Protein of unknown function DUF124; Region: DUF124; cl00884 279010006083 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 279010006084 DNA-binding site [nucleotide binding]; DNA binding site 279010006085 RNA-binding motif; other site 279010006086 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 279010006087 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 279010006088 hypothetical protein; Validated; Region: PRK07708 279010006089 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 279010006090 RNA/DNA hybrid binding site [nucleotide binding]; other site 279010006091 active site 279010006092 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 279010006093 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 279010006094 RNA/DNA hybrid binding site [nucleotide binding]; other site 279010006095 active site 279010006096 small, acid-soluble spore protein L; Region: SASP_sspL; TIGR03093 279010006097 5'-3' exonuclease; Region: 53EXOc; smart00475 279010006098 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 279010006099 active site 279010006100 metal binding site 1 [ion binding]; metal-binding site 279010006101 putative 5' ssDNA interaction site; other site 279010006102 metal binding site 3; metal-binding site 279010006103 metal binding site 2 [ion binding]; metal-binding site 279010006104 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 279010006105 putative DNA binding site [nucleotide binding]; other site 279010006106 putative metal binding site [ion binding]; other site 279010006107 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 279010006108 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 279010006109 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 279010006110 G1 box; other site 279010006111 GTP/Mg2+ binding site [chemical binding]; other site 279010006112 Switch I region; other site 279010006113 G2 box; other site 279010006114 Switch II region; other site 279010006115 G3 box; other site 279010006116 G4 box; other site 279010006117 G5 box; other site 279010006118 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 279010006119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006120 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 279010006121 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 279010006122 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 279010006123 malonyl-CoA binding site [chemical binding]; other site 279010006124 dimer interface [polypeptide binding]; other site 279010006125 active site 279010006126 product binding site; other site 279010006127 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010006128 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010006129 Permease family; Region: Xan_ur_permease; cl00967 279010006130 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010006131 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 279010006132 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 279010006133 active site 279010006134 Zn binding site [ion binding]; other site 279010006135 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 279010006136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006138 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 279010006139 THUMP domain; Region: THUMP; cl12076 279010006140 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; cl12011 279010006141 cell division protein GpsB; Provisional; Region: PRK14127 279010006142 DivIVA domain; Region: DivI1A_domain; TIGR03544 279010006143 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 279010006144 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 279010006145 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 279010006146 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 279010006147 active site 279010006148 substrate binding site [chemical binding]; other site 279010006149 catalytic site [active] 279010006150 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 279010006151 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 279010006152 ATP binding site [chemical binding]; other site 279010006153 putative Mg++ binding site [ion binding]; other site 279010006154 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 279010006155 nucleotide binding region [chemical binding]; other site 279010006156 ATP-binding site [chemical binding]; other site 279010006157 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 279010006158 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; cl00162 279010006159 HPr interaction site; other site 279010006160 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279010006161 active site 279010006162 phosphorylation site [posttranslational modification] 279010006163 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 279010006164 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 279010006165 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 279010006166 Recombination protein U; Region: RecU; cl01314 279010006167 Transglycosylase; Region: Transgly; cl07896 279010006168 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 279010006169 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010006170 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; cl00065 279010006171 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 279010006172 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279010006173 minor groove reading motif; other site 279010006174 helix-hairpin-helix signature motif; other site 279010006175 substrate binding pocket [chemical binding]; other site 279010006176 active site 279010006177 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 279010006178 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 279010006179 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 279010006180 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 279010006181 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 279010006182 putative dimer interface [polypeptide binding]; other site 279010006183 putative anticodon binding site; other site 279010006184 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 279010006185 homodimer interface [polypeptide binding]; other site 279010006186 motif 1; other site 279010006187 motif 2; other site 279010006188 active site 279010006189 motif 3; other site 279010006190 aspartate aminotransferase; Provisional; Region: PRK05764 279010006191 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 279010006192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006193 homodimer interface [polypeptide binding]; other site 279010006194 catalytic residue [active] 279010006195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 279010006196 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 279010006197 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 279010006198 active site 279010006199 substrate binding site [chemical binding]; other site 279010006200 catalytic site [active] 279010006201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006203 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 279010006204 tetramerization interface [polypeptide binding]; other site 279010006205 active site 279010006206 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 279010006207 Pantoate-beta-alanine ligase; Region: PanC; cd00560 279010006208 active site 279010006209 ATP-binding site [chemical binding]; other site 279010006210 pantoate-binding site; other site 279010006211 HXXH motif; other site 279010006212 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 279010006213 oligomerization interface [polypeptide binding]; other site 279010006214 active site 279010006215 metal binding site [ion binding]; metal-binding site 279010006216 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006217 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 279010006218 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 279010006219 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 279010006220 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 279010006221 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 279010006222 active site 279010006223 NTP binding site [chemical binding]; other site 279010006224 metal binding triad [ion binding]; metal-binding site 279010006225 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 279010006226 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 279010006227 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 279010006228 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 279010006229 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 279010006230 active site 279010006231 dimer interfaces [polypeptide binding]; other site 279010006232 catalytic residues [active] 279010006233 dihydrodipicolinate reductase; Provisional; Region: PRK00048 279010006234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006235 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 279010006236 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 279010006237 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010006238 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010006239 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 279010006240 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 279010006241 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 279010006242 Cytochrome c; Region: Cytochrom_C; cl11414 279010006243 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 279010006244 interchain domain interface [polypeptide binding]; other site 279010006245 intrachain domain interface; other site 279010006246 heme bH binding site [chemical binding]; other site 279010006247 Qi binding site; other site 279010006248 heme bL binding site [chemical binding]; other site 279010006249 Qo binding site; other site 279010006250 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 279010006251 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 279010006252 iron-sulfur cluster [ion binding]; other site 279010006253 [2Fe-2S] cluster binding site [ion binding]; other site 279010006254 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 279010006255 hypothetical protein; Provisional; Region: PRK03636 279010006256 UPF0302 domain; Region: UPF0302; pfam08864 279010006257 IDEAL domain; Region: IDEAL; cl07452 279010006258 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 279010006259 TPR motif; other site 279010006260 binding surface 279010006261 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 279010006262 binding surface 279010006263 TPR motif; other site 279010006264 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 279010006265 binding surface 279010006266 TPR motif; other site 279010006267 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 279010006268 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 279010006269 hinge; other site 279010006270 active site 279010006271 prephenate dehydrogenase; Validated; Region: PRK06545 279010006272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006273 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 279010006274 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 279010006275 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 279010006276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006277 homodimer interface [polypeptide binding]; other site 279010006278 catalytic residue [active] 279010006279 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 279010006280 substrate binding site [chemical binding]; other site 279010006281 active site 279010006282 catalytic residues [active] 279010006283 heterodimer interface [polypeptide binding]; other site 279010006284 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 279010006285 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279010006286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006287 catalytic residue [active] 279010006288 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 279010006289 active site 279010006290 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 279010006291 active site 279010006292 ribulose/triose binding site [chemical binding]; other site 279010006293 phosphate binding site [ion binding]; other site 279010006294 substrate (anthranilate) binding pocket [chemical binding]; other site 279010006295 product (indole) binding pocket [chemical binding]; other site 279010006296 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 279010006297 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 279010006298 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279010006299 anthranilate synthase component I; Provisional; Region: PRK13569 279010006300 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 279010006301 chorismate binding enzyme; Region: Chorismate_bind; cl10555 279010006302 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 279010006303 homotrimer interaction site [polypeptide binding]; other site 279010006304 active site 279010006305 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 279010006306 active site 279010006307 dimer interface [polypeptide binding]; other site 279010006308 metal binding site [ion binding]; metal-binding site 279010006309 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 279010006310 Tetramer interface [polypeptide binding]; other site 279010006311 active site 279010006312 FMN-binding site [chemical binding]; other site 279010006313 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 279010006314 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 279010006315 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; cl12011 279010006316 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 279010006317 active site 279010006318 multimer interface [polypeptide binding]; other site 279010006319 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 279010006320 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 279010006321 substrate binding pocket [chemical binding]; other site 279010006322 chain length determination region; other site 279010006323 substrate-Mg2+ binding site; other site 279010006324 catalytic residues [active] 279010006325 aspartate-rich region 1; other site 279010006326 active site lid residues [active] 279010006327 aspartate-rich region 2; other site 279010006328 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 279010006329 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 279010006330 S-adenosylmethionine binding site [chemical binding]; other site 279010006331 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 279010006332 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 279010006333 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 279010006334 homodecamer interface [polypeptide binding]; other site 279010006335 GTP cyclohydrolase I; Provisional; Region: PLN03044 279010006336 active site 279010006337 putative catalytic site residues [active] 279010006338 zinc binding site [ion binding]; other site 279010006339 GTP-CH-I/GFRP interaction surface; other site 279010006340 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 279010006341 IHF dimer interface [polypeptide binding]; other site 279010006342 IHF - DNA interface [nucleotide binding]; other site 279010006343 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 279010006344 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 279010006345 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 279010006346 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006347 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 279010006348 GTP-binding protein Der; Reviewed; Region: PRK00093 279010006349 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 279010006350 G1 box; other site 279010006351 GTP/Mg2+ binding site [chemical binding]; other site 279010006352 Switch I region; other site 279010006353 G2 box; other site 279010006354 Switch II region; other site 279010006355 G3 box; other site 279010006356 G4 box; other site 279010006357 G5 box; other site 279010006358 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 279010006359 G1 box; other site 279010006360 GTP/Mg2+ binding site [chemical binding]; other site 279010006361 Switch I region; other site 279010006362 G2 box; other site 279010006363 G3 box; other site 279010006364 Switch II region; other site 279010006365 G4 box; other site 279010006366 G5 box; other site 279010006367 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 279010006368 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 279010006369 homotetramer interface [polypeptide binding]; other site 279010006370 FMN binding site [chemical binding]; other site 279010006371 homodimer contacts [polypeptide binding]; other site 279010006372 putative active site [active] 279010006373 putative substrate binding site [chemical binding]; other site 279010006374 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 279010006375 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 279010006376 RNA binding site [nucleotide binding]; other site 279010006377 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 279010006378 RNA binding site [nucleotide binding]; other site 279010006379 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 279010006380 RNA binding site [nucleotide binding]; other site 279010006381 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 279010006382 RNA binding site [nucleotide binding]; other site 279010006383 cytidylate kinase; Provisional; Region: cmk; PRK00023 279010006384 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 279010006385 CMP-binding site; other site 279010006386 The sites determining sugar specificity; other site 279010006387 germination protein YpeB; Region: spore_YpeB; TIGR02889 279010006388 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010006389 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 279010006390 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 279010006391 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 279010006392 active site 279010006393 homotetramer interface [polypeptide binding]; other site 279010006394 homodimer interface [polypeptide binding]; other site 279010006395 putative bacillithiol system thiol disulfide oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 279010006396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006398 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 279010006399 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 279010006400 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 279010006401 NAD(P) binding site [chemical binding]; other site 279010006402 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 279010006403 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 279010006404 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010006405 putative active site [active] 279010006406 putative metal binding site [ion binding]; other site 279010006407 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 279010006408 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; cl00107 279010006409 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 279010006410 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 279010006411 ATP binding site [chemical binding]; other site 279010006412 putative Mg++ binding site [ion binding]; other site 279010006413 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 279010006414 nucleotide binding region [chemical binding]; other site 279010006415 ATP-binding site [chemical binding]; other site 279010006416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 279010006417 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 279010006418 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 279010006419 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 279010006420 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 279010006421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006422 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 279010006423 putative L-serine binding site [chemical binding]; other site 279010006424 Peptidase family M23; Region: Peptidase_M23; pfam01551 279010006425 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 279010006426 putative peptidoglycan binding site; other site 279010006427 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 279010006428 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 279010006429 putative peptidoglycan binding site; other site 279010006430 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 279010006431 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010006432 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 279010006433 DNA binding residues [nucleotide binding] 279010006434 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 279010006435 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 279010006436 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010006437 Rogdi leucine zipper containing protein; Region: Rogdi_lz; pfam10259 279010006438 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 279010006439 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 279010006440 dimerization interface [polypeptide binding]; other site 279010006441 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 279010006442 dimer interface [polypeptide binding]; other site 279010006443 phosphorylation site [posttranslational modification] 279010006444 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 279010006445 ATP binding site [chemical binding]; other site 279010006446 Mg2+ binding site [ion binding]; other site 279010006447 G-X-G motif; other site 279010006448 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010006449 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 279010006450 active site 279010006451 phosphorylation site [posttranslational modification] 279010006452 intermolecular recognition site; other site 279010006453 dimerization interface [polypeptide binding]; other site 279010006454 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 279010006455 DNA binding site [nucleotide binding] 279010006456 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 279010006457 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 279010006458 dimerization interface [polypeptide binding]; other site 279010006459 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 279010006460 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 279010006461 dimer interface [polypeptide binding]; other site 279010006462 phosphorylation site [posttranslational modification] 279010006463 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 279010006464 ATP binding site [chemical binding]; other site 279010006465 Mg2+ binding site [ion binding]; other site 279010006466 G-X-G motif; other site 279010006467 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010006468 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 279010006469 active site 279010006470 phosphorylation site [posttranslational modification] 279010006471 intermolecular recognition site; other site 279010006472 dimerization interface [polypeptide binding]; other site 279010006473 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 279010006474 DNA binding site [nucleotide binding] 279010006475 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 279010006476 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 279010006477 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 279010006478 ResB-like family; Region: ResB; pfam05140 279010006479 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 279010006480 catalytic residues [active] 279010006481 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 279010006482 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 279010006483 RNA binding surface [nucleotide binding]; other site 279010006484 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 279010006485 active site 279010006486 Nucleoside recognition; Region: Gate; cl00486 279010006487 Nucleoside recognition; Region: Gate; cl00486 279010006488 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 279010006489 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 279010006490 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 279010006491 ScpA/B protein; Region: ScpA_ScpB; cl00598 279010006492 Domain of unknown function (DUF309); Region: DUF309; cl00667 279010006493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010006494 Coenzyme A binding pocket [chemical binding]; other site 279010006495 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 279010006496 homopentamer interface [polypeptide binding]; other site 279010006497 active site 279010006498 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 279010006499 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 279010006500 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 279010006501 dimerization interface [polypeptide binding]; other site 279010006502 active site 279010006503 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 279010006504 Lumazine binding domain; Region: Lum_binding; pfam00677 279010006505 Lumazine binding domain; Region: Lum_binding; pfam00677 279010006506 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 279010006507 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 279010006508 catalytic motif [active] 279010006509 Zn binding site [ion binding]; other site 279010006510 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 279010006511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006512 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 279010006513 active site 279010006514 metal binding site [ion binding]; metal-binding site 279010006515 RNA ligase; Region: RNA_lig_T4_1; cl09743 279010006516 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 279010006517 putative dimer interface [polypeptide binding]; other site 279010006518 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 279010006519 TPR motif; other site 279010006520 binding surface 279010006521 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 279010006522 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 279010006523 active site 279010006524 Predicted secreted protein [Function unknown]; Region: COG4086 279010006525 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006526 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006527 putative transposase OrfB; Reviewed; Region: PHA02517 279010006528 Integrase core domain; Region: rve; cl01316 279010006529 Protein of unknown function (DUF867); Region: DUF867; cl01713 279010006530 diaminopimelate decarboxylase; Region: lysA; TIGR01048 279010006531 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 279010006532 active site 279010006533 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010006534 substrate binding site [chemical binding]; other site 279010006535 catalytic residues [active] 279010006536 dimer interface [polypeptide binding]; other site 279010006537 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 279010006538 stage V sporulation protein AD; Validated; Region: PRK08304 279010006539 stage V sporulation protein AD; Provisional; Region: PRK12404 279010006540 SpoVA protein; Region: SpoVA; cl04298 279010006541 Stage V sporulation protein AA; Region: SporV_AA; pfam12164 279010006542 sporulation sigma factor SigF; Validated; Region: PRK05572 279010006543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010006544 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279010006545 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 279010006546 DNA binding residues [nucleotide binding] 279010006547 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 279010006548 ATP binding site [chemical binding]; other site 279010006549 Mg2+ binding site [ion binding]; other site 279010006550 G-X-G motif; other site 279010006551 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 279010006552 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 279010006553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010006554 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 279010006555 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 279010006556 Sulfatase; Region: Sulfatase; cl10460 279010006557 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 279010006558 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 279010006559 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 279010006560 Int/Topo IB signature motif; other site 279010006561 active site 279010006562 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279010006563 metal binding site 2 [ion binding]; metal-binding site 279010006564 putative DNA binding helix; other site 279010006565 metal binding site 1 [ion binding]; metal-binding site 279010006566 dimer interface [polypeptide binding]; other site 279010006567 structural Zn2+ binding site [ion binding]; other site 279010006568 Integral membrane protein DUF95; Region: DUF95; cl00572 279010006569 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010006570 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 279010006571 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 279010006572 active site 279010006573 P-loop; other site 279010006574 phosphorylation site [posttranslational modification] 279010006575 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010006576 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010006577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010006578 Coenzyme A binding pocket [chemical binding]; other site 279010006579 TIGR00375 family protein; Region: TIGR00375 279010006580 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 279010006581 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 279010006582 dimer interface [polypeptide binding]; other site 279010006583 ADP-ribose binding site [chemical binding]; other site 279010006584 active site 279010006585 nudix motif; other site 279010006586 metal binding site [ion binding]; metal-binding site 279010006587 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010006588 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006589 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 279010006590 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 279010006591 active site 279010006592 catalytic tetrad [active] 279010006593 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 279010006594 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 279010006595 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 279010006596 Protein of unknown function (DUF2552); Region: DUF2552; pfam10827 279010006597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 279010006598 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 279010006599 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010006600 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 279010006601 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279010006602 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 279010006603 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 279010006604 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 279010006605 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 279010006606 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 279010006607 dimer interface [polypeptide binding]; other site 279010006608 conserved gate region; other site 279010006609 putative PBP binding loops; other site 279010006610 ABC-ATPase subunit interface; other site 279010006611 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 279010006612 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 279010006613 dimer interface [polypeptide binding]; other site 279010006614 conserved gate region; other site 279010006615 putative PBP binding loops; other site 279010006616 ABC-ATPase subunit interface; other site 279010006617 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 279010006618 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 279010006619 Walker A/P-loop; other site 279010006620 ATP binding site [chemical binding]; other site 279010006621 Q-loop/lid; other site 279010006622 ABC transporter signature motif; other site 279010006623 Walker B; other site 279010006624 D-loop; other site 279010006625 H-loop/switch region; other site 279010006626 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 279010006627 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 279010006628 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 279010006629 Walker A/P-loop; other site 279010006630 ATP binding site [chemical binding]; other site 279010006631 Q-loop/lid; other site 279010006632 ABC transporter signature motif; other site 279010006633 Walker B; other site 279010006634 D-loop; other site 279010006635 H-loop/switch region; other site 279010006636 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 279010006637 MatE; Region: MatE; cl10513 279010006638 MatE; Region: MatE; cl10513 279010006639 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 279010006640 similar to hypothetical protein; BLi02534 279010006641 YolD-like protein; Region: YolD; pfam08863 279010006642 DNA polymerase IV; Reviewed; Region: PRK03103 279010006643 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 279010006644 active site 279010006645 DNA binding site [nucleotide binding] 279010006646 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 279010006647 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010006648 putative substrate translocation pore; other site 279010006649 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_6; cd07242 279010006650 putative dimer interface [polypeptide binding]; other site 279010006651 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010006652 ligand binding site [chemical binding]; other site 279010006653 Zn binding site [ion binding]; other site 279010006654 pantothenate kinase; Provisional; Region: PRK05439 279010006655 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 279010006656 ATP-binding site [chemical binding]; other site 279010006657 CoA-binding site [chemical binding]; other site 279010006658 Mg2+-binding site [ion binding]; other site 279010006659 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 279010006660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010006661 Walker A/P-loop; other site 279010006662 ATP binding site [chemical binding]; other site 279010006663 Q-loop/lid; other site 279010006664 ABC transporter signature motif; other site 279010006665 Walker B; other site 279010006666 D-loop; other site 279010006667 H-loop/switch region; other site 279010006668 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 279010006669 Protein of unknown function (DUF867); Region: DUF867; cl01713 279010006670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006671 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 279010006672 NAD(P) binding site [chemical binding]; other site 279010006673 active site 279010006674 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 279010006675 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010006676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006677 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 279010006678 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 279010006679 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 279010006680 putative metal binding site [ion binding]; other site 279010006681 putative dimer interface [polypeptide binding]; other site 279010006682 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 279010006683 active site 279010006684 FMN binding site [chemical binding]; other site 279010006685 substrate binding site [chemical binding]; other site 279010006686 homotetramer interface [polypeptide binding]; other site 279010006687 catalytic residue [active] 279010006688 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 279010006689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279010006690 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 279010006691 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010006692 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 279010006693 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 279010006694 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 279010006695 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010006696 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 279010006697 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010006698 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 279010006699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010006700 DNA-binding site [nucleotide binding]; DNA binding site 279010006701 UTRA domain; Region: UTRA; cl01230 279010006702 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010006703 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; cl00166 279010006704 active site 279010006705 methionine cluster; other site 279010006706 phosphorylation site [posttranslational modification] 279010006707 metal binding site [ion binding]; metal-binding site 279010006708 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 279010006709 active site 279010006710 P-loop; other site 279010006711 phosphorylation site [posttranslational modification] 279010006712 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 279010006713 dimer interface [polypeptide binding]; other site 279010006714 Alkaline phosphatase homologues; Region: alkPPc; smart00098 279010006715 active site 279010006716 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 279010006717 glucose-1-dehydrogenase; Provisional; Region: PRK08936 279010006718 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 279010006719 NAD binding site [chemical binding]; other site 279010006720 homodimer interface [polypeptide binding]; other site 279010006721 active site 279010006722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006723 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 279010006724 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 279010006725 DNA polymerase IV; Validated; Region: PRK01810 279010006726 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 279010006727 active site 279010006728 DNA binding site [nucleotide binding] 279010006729 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 279010006730 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 279010006731 peptidase T-like protein; Region: PepT-like; TIGR01883 279010006732 metal binding site [ion binding]; metal-binding site 279010006733 putative dimer interface [polypeptide binding]; other site 279010006734 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 279010006735 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010006736 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010006737 Predicted membrane protein [Function unknown]; Region: COG4129 279010006738 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 279010006739 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 279010006740 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 279010006741 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 279010006742 Walker A/P-loop; other site 279010006743 ATP binding site [chemical binding]; other site 279010006744 Q-loop/lid; other site 279010006745 ABC transporter signature motif; other site 279010006746 Walker B; other site 279010006747 D-loop; other site 279010006748 H-loop/switch region; other site 279010006749 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 279010006750 dimer interface [polypeptide binding]; other site 279010006751 conserved gate region; other site 279010006752 putative PBP binding loops; other site 279010006753 ABC-ATPase subunit interface; other site 279010006754 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 279010006755 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 279010006756 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 279010006757 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279010006758 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 279010006759 E3 interaction surface; other site 279010006760 lipoyl attachment site [posttranslational modification]; other site 279010006761 e3 binding domain; Region: E3_binding; pfam02817 279010006762 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 279010006763 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279010006764 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 279010006765 alpha subunit interface [polypeptide binding]; other site 279010006766 TPP binding site [chemical binding]; other site 279010006767 heterodimer interface [polypeptide binding]; other site 279010006768 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010006769 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 279010006770 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 279010006771 tetramer interface [polypeptide binding]; other site 279010006772 TPP-binding site [chemical binding]; other site 279010006773 heterodimer interface [polypeptide binding]; other site 279010006774 phosphorylation loop region [posttranslational modification] 279010006775 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 279010006776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010006778 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279010006779 Acetokinase family; Region: Acetate_kinase; cl01029 279010006780 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 279010006781 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 279010006782 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 279010006783 NAD binding site [chemical binding]; other site 279010006784 Phe binding site; other site 279010006785 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 279010006786 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 279010006787 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 279010006788 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 279010006789 putative active site [active] 279010006790 heme pocket [chemical binding]; other site 279010006791 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 279010006792 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 279010006793 Walker A motif; other site 279010006794 ATP binding site [chemical binding]; other site 279010006795 Walker B motif; other site 279010006796 arginine finger; other site 279010006797 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006798 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 279010006799 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 279010006800 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 279010006801 active site 279010006802 catalytic site [active] 279010006803 metal binding site [ion binding]; metal-binding site 279010006804 dimer interface [polypeptide binding]; other site 279010006805 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 279010006806 active site 279010006807 metal binding site [ion binding]; metal-binding site 279010006808 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 279010006809 active site 279010006810 substrate binding site [chemical binding]; other site 279010006811 trimer interface [polypeptide binding]; other site 279010006812 CoA binding site [chemical binding]; other site 279010006813 Bacillus cereus group antimicrobial protein; Region: lci; pfam12197 279010006814 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 279010006815 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 279010006816 active site 279010006817 phosphorylation site [posttranslational modification] 279010006818 intermolecular recognition site; other site 279010006819 dimerization interface [polypeptide binding]; other site 279010006820 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 279010006821 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 279010006822 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 279010006823 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 279010006824 DNA repair protein RecN; Region: recN; TIGR00634 279010006825 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 279010006826 Walker A/P-loop; other site 279010006827 ATP binding site [chemical binding]; other site 279010006828 Q-loop/lid; other site 279010006829 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 279010006830 ABC transporter signature motif; other site 279010006831 Walker B; other site 279010006832 D-loop; other site 279010006833 H-loop/switch region; other site 279010006834 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 279010006835 arginine repressor; Provisional; Region: PRK04280 279010006836 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 279010006837 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 279010006838 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 279010006839 RNA binding surface [nucleotide binding]; other site 279010006840 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; cl12011 279010006841 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 279010006842 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 279010006843 TPP-binding site; other site 279010006844 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 279010006845 PYR/PP interface [polypeptide binding]; other site 279010006846 dimer interface [polypeptide binding]; other site 279010006847 TPP binding site [chemical binding]; other site 279010006848 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279010006849 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 279010006850 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 279010006851 substrate binding pocket [chemical binding]; other site 279010006852 chain length determination region; other site 279010006853 substrate-Mg2+ binding site; other site 279010006854 catalytic residues [active] 279010006855 aspartate-rich region 1; other site 279010006856 active site lid residues [active] 279010006857 aspartate-rich region 2; other site 279010006858 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 279010006859 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 279010006860 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 279010006861 generic binding surface II; other site 279010006862 generic binding surface I; other site 279010006863 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 279010006864 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 279010006865 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 279010006866 homodimer interface [polypeptide binding]; other site 279010006867 NADP binding site [chemical binding]; other site 279010006868 substrate binding site [chemical binding]; other site 279010006869 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 279010006870 putative RNA binding site [nucleotide binding]; other site 279010006871 Protein of unknown function (DUF322); Region: DUF322; cl00574 279010006872 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 279010006873 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279010006874 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010006875 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 279010006876 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 279010006877 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 279010006878 carboxyltransferase (CT) interaction site; other site 279010006879 biotinylation site [posttranslational modification]; other site 279010006880 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 279010006881 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 279010006882 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl09803 279010006883 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 279010006884 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 279010006885 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 279010006886 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 279010006887 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 279010006888 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 279010006889 Walker A motif; other site 279010006890 ATP binding site [chemical binding]; other site 279010006891 Walker B motif; other site 279010006892 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 279010006893 elongation factor P; Validated; Region: PRK00529 279010006894 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 279010006895 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 279010006896 RNA binding site [nucleotide binding]; other site 279010006897 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 279010006898 RNA binding site [nucleotide binding]; other site 279010006899 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 279010006900 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 279010006901 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 279010006902 active site 279010006903 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 279010006904 trimer interface [polypeptide binding]; other site 279010006905 active site 279010006906 dimer interface [polypeptide binding]; other site 279010006907 Conserved membrane protein YqhR; Region: YqhR; pfam11085 279010006908 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 279010006909 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 279010006910 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 279010006911 active site 279010006912 nucleophile elbow; other site 279010006913 manganese transport transcriptional regulator; Provisional; Region: PRK03902 279010006914 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010006915 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 279010006916 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 279010006917 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 279010006918 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 279010006919 active site residue [active] 279010006920 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010006921 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010006922 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 279010006923 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 279010006924 dimer interface [polypeptide binding]; other site 279010006925 conserved gate region; other site 279010006926 putative PBP binding loops; other site 279010006927 ABC-ATPase subunit interface; other site 279010006928 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 279010006929 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 279010006930 Walker A/P-loop; other site 279010006931 ATP binding site [chemical binding]; other site 279010006932 Q-loop/lid; other site 279010006933 ABC transporter signature motif; other site 279010006934 Walker B; other site 279010006935 D-loop; other site 279010006936 H-loop/switch region; other site 279010006937 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 279010006938 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 279010006939 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 279010006940 tetramer interface [polypeptide binding]; other site 279010006941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006942 catalytic residue [active] 279010006943 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 279010006944 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 279010006945 tetramer interface [polypeptide binding]; other site 279010006946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010006947 catalytic residue [active] 279010006948 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 279010006949 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 279010006950 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 279010006951 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 279010006952 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 279010006953 ATP binding site [chemical binding]; other site 279010006954 putative Mg++ binding site [ion binding]; other site 279010006955 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 279010006956 nucleotide binding region [chemical binding]; other site 279010006957 ATP-binding site [chemical binding]; other site 279010006958 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 279010006959 Anti-repressor SinI; Region: SinI; pfam08671 279010006960 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 279010006961 non-specific DNA binding site [nucleotide binding]; other site 279010006962 salt bridge; other site 279010006963 sequence-specific DNA binding site [nucleotide binding]; other site 279010006964 Anti-repressor SinI; Region: SinI; pfam08671 279010006965 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 279010006966 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 279010006967 Catalytic site [active] 279010006968 YqxM protein; Region: YqxM_for_SipW; TIGR04087 279010006969 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 279010006970 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 279010006971 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 279010006972 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 279010006973 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 279010006974 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 279010006975 Walker A motif; other site 279010006976 ATP binding site [chemical binding]; other site 279010006977 Walker B motif; other site 279010006978 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 279010006979 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 279010006980 ArsC family; Region: ArsC; pfam03960 279010006981 putative catalytic residues [active] 279010006982 thiol/disulfide switch; other site 279010006983 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 279010006984 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010006985 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 279010006986 Domain of unknown function DUF77; Region: DUF77; cl00307 279010006987 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 279010006988 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 279010006989 putative active site [active] 279010006990 Zn binding site [ion binding]; other site 279010006991 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 279010006992 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 279010006993 putative ligand binding residues [chemical binding]; other site 279010006994 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 279010006995 Sulfatase; Region: Sulfatase; cl10460 279010006996 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 279010006997 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 279010006998 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 279010006999 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 279010007000 Rhomboid family; Region: Rhomboid; cl11446 279010007001 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 279010007002 binding surface 279010007003 TPR motif; other site 279010007004 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 279010007005 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 279010007006 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010007007 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 279010007008 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 279010007009 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14274 279010007010 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 279010007011 Walker A/P-loop; other site 279010007012 ATP binding site [chemical binding]; other site 279010007013 Q-loop/lid; other site 279010007014 ABC transporter signature motif; other site 279010007015 Walker B; other site 279010007016 D-loop; other site 279010007017 H-loop/switch region; other site 279010007018 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14248 279010007019 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 279010007020 Walker A/P-loop; other site 279010007021 ATP binding site [chemical binding]; other site 279010007022 Q-loop/lid; other site 279010007023 ABC transporter signature motif; other site 279010007024 Walker B; other site 279010007025 D-loop; other site 279010007026 H-loop/switch region; other site 279010007027 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 279010007028 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 279010007029 dimer interface [polypeptide binding]; other site 279010007030 conserved gate region; other site 279010007031 ABC-ATPase subunit interface; other site 279010007032 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 279010007033 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 279010007034 dimer interface [polypeptide binding]; other site 279010007035 conserved gate region; other site 279010007036 putative PBP binding loops; other site 279010007037 ABC-ATPase subunit interface; other site 279010007038 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 279010007039 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 279010007040 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010007041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010007042 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 279010007043 putative substrate translocation pore; other site 279010007044 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 279010007045 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 279010007046 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 279010007047 Protein of unknown function (DUF456); Region: DUF456; cl01069 279010007048 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 279010007049 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; cl00107 279010007050 putative peptidoglycan binding site; other site 279010007051 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 279010007052 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 279010007053 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl01869 279010007054 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279010007055 metal binding site 2 [ion binding]; metal-binding site 279010007056 putative DNA binding helix; other site 279010007057 metal binding site 1 [ion binding]; metal-binding site 279010007058 dimer interface [polypeptide binding]; other site 279010007059 structural Zn2+ binding site [ion binding]; other site 279010007060 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 279010007061 ABC-ATPase subunit interface; other site 279010007062 dimer interface [polypeptide binding]; other site 279010007063 putative PBP binding regions; other site 279010007064 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 279010007065 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 279010007066 Uncharacterized conserved protein [Function unknown]; Region: COG1284 279010007067 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010007068 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010007069 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010007070 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 279010007071 endonuclease IV; Provisional; Region: PRK01060 279010007072 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 279010007073 AP (apurinic/apyrimidinic) site pocket; other site 279010007074 DNA interaction; other site 279010007075 Metal-binding active site; metal-binding site 279010007076 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 279010007077 DEAD-like helicases superfamily; Region: DEXDc; smart00487 279010007078 ATP binding site [chemical binding]; other site 279010007079 Mg++ binding site [ion binding]; other site 279010007080 motif III; other site 279010007081 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 279010007082 nucleotide binding region [chemical binding]; other site 279010007083 ATP-binding site [chemical binding]; other site 279010007084 LytB protein; Region: LYTB; cl00507 279010007085 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 279010007086 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 279010007087 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 279010007088 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 279010007089 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; cl12011 279010007090 Uncharacterized conserved protein [Function unknown]; Region: COG5444 279010007091 Uncharacterized conserved protein [Function unknown]; Region: COG5444 279010007092 Cytochrome c; Region: Cytochrom_C; cl11414 279010007093 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 279010007094 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 279010007095 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 279010007096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010007097 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279010007098 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 279010007099 DNA binding residues [nucleotide binding] 279010007100 DNA primase; Validated; Region: dnaG; PRK05667 279010007101 CHC2 zinc finger; Region: zf-CHC2; cl15369 279010007102 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 279010007103 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 279010007104 active site 279010007105 metal binding site [ion binding]; metal-binding site 279010007106 interdomain interaction site; other site 279010007107 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 279010007108 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 279010007109 Domain of unknown function (DUF299); Region: DUF299; cl00780 279010007110 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007111 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 279010007112 FOG: CBS domain [General function prediction only]; Region: COG0517 279010007113 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 279010007114 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 279010007115 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 279010007116 dimer interface [polypeptide binding]; other site 279010007117 motif 1; other site 279010007118 active site 279010007119 motif 2; other site 279010007120 motif 3; other site 279010007121 Recombination protein O N terminal; Region: RecO_N; pfam11967 279010007122 DNA repair protein RecO; Region: reco; TIGR00613 279010007123 Recombination protein O C terminal; Region: RecO_C; pfam02565 279010007124 GTPase Era; Reviewed; Region: era; PRK00089 279010007125 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 279010007126 G1 box; other site 279010007127 GTP/Mg2+ binding site [chemical binding]; other site 279010007128 Switch I region; other site 279010007129 G2 box; other site 279010007130 Switch II region; other site 279010007131 G3 box; other site 279010007132 G4 box; other site 279010007133 G5 box; other site 279010007134 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 279010007135 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 279010007136 active site 279010007137 catalytic motif [active] 279010007138 Zn binding site [ion binding]; other site 279010007139 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 279010007140 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 279010007141 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 279010007142 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 279010007143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279010007144 Zn2+ binding site [ion binding]; other site 279010007145 Mg2+ binding site [ion binding]; other site 279010007146 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 279010007147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010007148 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 279010007149 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 279010007150 YabP family; Region: YabP; cl06766 279010007151 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 279010007152 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 279010007153 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 279010007154 dimer interface [polypeptide binding]; other site 279010007155 active site residues [active] 279010007156 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 279010007157 GatB domain; Region: GatB_Yqey; cl11497 279010007158 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 279010007159 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 279010007160 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 279010007161 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 279010007162 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 279010007163 intersubunit interface [polypeptide binding]; other site 279010007164 active site 279010007165 catalytic residue [active] 279010007166 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 279010007167 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 279010007168 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 279010007169 FeS/SAM binding site; other site 279010007170 TRAM domain; Region: TRAM; cl01282 279010007171 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 279010007172 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 279010007173 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 279010007174 S-adenosylmethionine binding site [chemical binding]; other site 279010007175 chaperone protein DnaJ; Provisional; Region: PRK14280 279010007176 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 279010007177 HSP70 interaction site [polypeptide binding]; other site 279010007178 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 279010007179 substrate binding site [polypeptide binding]; other site 279010007180 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 279010007181 Zn binding sites [ion binding]; other site 279010007182 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 279010007183 dimer interface [polypeptide binding]; other site 279010007184 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 279010007185 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 279010007186 dimer interface [polypeptide binding]; other site 279010007187 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 279010007188 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 279010007189 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007190 HrcA protein C terminal domain; Region: HrcA; pfam01628 279010007191 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 279010007192 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 279010007193 FeS/SAM binding site; other site 279010007194 HemN C-terminal region; Region: HemN_C; pfam06969 279010007195 GTP-binding protein LepA; Provisional; Region: PRK05433 279010007196 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 279010007197 G1 box; other site 279010007198 putative GEF interaction site [polypeptide binding]; other site 279010007199 GTP/Mg2+ binding site [chemical binding]; other site 279010007200 Switch I region; other site 279010007201 G2 box; other site 279010007202 G3 box; other site 279010007203 Switch II region; other site 279010007204 G4 box; other site 279010007205 G5 box; other site 279010007206 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 279010007207 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 279010007208 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 279010007209 Protein of unknown function (DUF3679); Region: DUF3679; pfam12438 279010007210 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 279010007211 stage II sporulation protein P; Region: spore_II_P; TIGR02867 279010007212 Germination protease; Region: Peptidase_A25; cl04057 279010007213 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 279010007214 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 279010007215 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 279010007216 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 279010007217 Competence protein; Region: Competence; cl00471 279010007218 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010007219 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 279010007220 catalytic motif [active] 279010007221 Zn binding site [ion binding]; other site 279010007222 SLBB domain; Region: SLBB; pfam10531 279010007223 comEA protein; Region: comE; TIGR01259 279010007224 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 279010007225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007226 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 279010007227 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 279010007228 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 279010007229 S-adenosylmethionine binding site [chemical binding]; other site 279010007230 Domain of unknown function DUF143; Region: DUF143; cl00519 279010007231 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 279010007232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279010007233 Zn2+ binding site [ion binding]; other site 279010007234 Mg2+ binding site [ion binding]; other site 279010007235 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 279010007236 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 279010007237 active site 279010007238 (T/H)XGH motif; other site 279010007239 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 279010007240 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 279010007241 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 279010007242 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 279010007243 shikimate binding site; other site 279010007244 NAD(P) binding site [chemical binding]; other site 279010007245 GTPase YqeH; Provisional; Region: PRK13796 279010007246 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 279010007247 GTP/Mg2+ binding site [chemical binding]; other site 279010007248 G4 box; other site 279010007249 G5 box; other site 279010007250 G1 box; other site 279010007251 Switch I region; other site 279010007252 G2 box; other site 279010007253 G3 box; other site 279010007254 Switch II region; other site 279010007255 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 279010007256 active site 279010007257 motif I; other site 279010007258 motif II; other site 279010007259 Sporulation inhibitor A; Region: Sda; pfam08970 279010007260 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 279010007261 active site 279010007262 catalytic triad [active] 279010007263 oxyanion hole [active] 279010007264 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010007265 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 279010007266 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 279010007267 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 279010007268 catalytic loop [active] 279010007269 iron binding site [ion binding]; other site 279010007270 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 279010007271 4Fe-4S binding domain; Region: Fer4; cl02805 279010007272 4Fe-4S binding domain; Region: Fer4; cl02805 279010007273 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 279010007274 [4Fe-4S] binding site [ion binding]; other site 279010007275 molybdopterin cofactor binding site; other site 279010007276 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 279010007277 molybdopterin cofactor binding site; other site 279010007278 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 279010007279 sporulation sigma factor SigK; Reviewed; Region: PRK05803 279010007280 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010007281 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 279010007282 DNA binding residues [nucleotide binding] 279010007283 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010007284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010007285 Coenzyme A binding pocket [chemical binding]; other site 279010007286 alanyl-tRNA synthetase; Provisional; Region: alaS; PRK13902 279010007287 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 279010007288 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 279010007289 DHHA1 domain; Region: DHHA1; pfam02272 279010007290 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 279010007291 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 279010007292 dimer interface [polypeptide binding]; other site 279010007293 active site 279010007294 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010007295 substrate binding site [chemical binding]; other site 279010007296 catalytic residue [active] 279010007297 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 279010007298 homotrimer interaction site [polypeptide binding]; other site 279010007299 putative active site [active] 279010007300 threonine synthase; Validated; Region: PRK06260 279010007301 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 279010007302 homodimer interface [polypeptide binding]; other site 279010007303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010007304 catalytic residue [active] 279010007305 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 279010007306 homotrimer interaction site [polypeptide binding]; other site 279010007307 putative active site [active] 279010007308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 279010007309 YheO-like PAS domain; Region: PAS_6; pfam08348 279010007310 sporulation sigma factor SigK; Reviewed; Region: PRK05803 279010007311 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; cl15358 279010007312 Flavin Reductases; Region: FlaRed; cl00801 279010007313 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279010007314 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 279010007315 DNA binding residues [nucleotide binding] 279010007316 drug binding residues [chemical binding]; other site 279010007317 dimer interface [polypeptide binding]; other site 279010007318 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010007319 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010007320 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 279010007321 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 279010007322 active site residue [active] 279010007323 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 279010007324 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010007325 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 279010007326 active site 279010007327 phosphorylation site [posttranslational modification] 279010007328 intermolecular recognition site; other site 279010007329 dimerization interface [polypeptide binding]; other site 279010007330 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 279010007331 DNA binding residues [nucleotide binding] 279010007332 dimerization interface [polypeptide binding]; other site 279010007333 PAS domain S-box; Region: sensory_box; TIGR00229 279010007334 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 279010007335 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279010007336 Histidine kinase; Region: HisKA_3; pfam07730 279010007337 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 279010007338 ATP binding site [chemical binding]; other site 279010007339 Mg2+ binding site [ion binding]; other site 279010007340 G-X-G motif; other site 279010007341 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 279010007342 catalytic residues [active] 279010007343 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 279010007344 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 279010007345 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 279010007346 CPxP motif; other site 279010007347 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; cl00125 279010007348 active site residue [active] 279010007349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010007350 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 279010007351 CPxP motif; other site 279010007352 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 279010007353 active site residue [active] 279010007354 DsrE/DsrF-like family; Region: DrsE; cl00672 279010007355 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 279010007356 putative homotetramer interface [polypeptide binding]; other site 279010007357 putative homodimer interface [polypeptide binding]; other site 279010007358 putative metal binding site [ion binding]; other site 279010007359 putative homodimer-homodimer interface [polypeptide binding]; other site 279010007360 putative allosteric switch controlling residues; other site 279010007361 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 279010007362 S-adenosylmethionine binding site [chemical binding]; other site 279010007363 A new structural DNA glycosylase; Region: AlkD_like; cd06561 279010007364 active site 279010007365 Domain of unknown function (DUF303); Region: DUF303; pfam03629 279010007366 Domain of unknown function DUF37; Region: DUF37; cl00506 279010007367 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; cl00338 279010007368 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 279010007369 tetramer interface [polypeptide binding]; other site 279010007370 active site 279010007371 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 279010007372 active site 279010007373 dimer interface [polypeptide binding]; other site 279010007374 magnesium binding site [ion binding]; other site 279010007375 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007376 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 279010007377 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 279010007378 putative di-iron ligands [ion binding]; other site 279010007379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 279010007380 Histidine kinase; Region: HisKA_3; pfam07730 279010007381 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 279010007382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010007383 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 279010007384 active site 279010007385 phosphorylation site [posttranslational modification] 279010007386 intermolecular recognition site; other site 279010007387 dimerization interface [polypeptide binding]; other site 279010007388 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 279010007389 DNA binding residues [nucleotide binding] 279010007390 dimerization interface [polypeptide binding]; other site 279010007391 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 279010007392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007393 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 279010007394 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 279010007395 substrate binding site [chemical binding]; other site 279010007396 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 279010007397 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 279010007398 dimer interface [polypeptide binding]; other site 279010007399 conserved gate region; other site 279010007400 putative PBP binding loops; other site 279010007401 ABC-ATPase subunit interface; other site 279010007402 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 279010007403 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 279010007404 dimer interface [polypeptide binding]; other site 279010007405 conserved gate region; other site 279010007406 putative PBP binding loops; other site 279010007407 ABC-ATPase subunit interface; other site 279010007408 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 279010007409 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 279010007410 Walker A/P-loop; other site 279010007411 ATP binding site [chemical binding]; other site 279010007412 Q-loop/lid; other site 279010007413 ABC transporter signature motif; other site 279010007414 Walker B; other site 279010007415 D-loop; other site 279010007416 H-loop/switch region; other site 279010007417 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 279010007418 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 279010007419 Walker A/P-loop; other site 279010007420 ATP binding site [chemical binding]; other site 279010007421 Q-loop/lid; other site 279010007422 ABC transporter signature motif; other site 279010007423 Walker B; other site 279010007424 D-loop; other site 279010007425 H-loop/switch region; other site 279010007426 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279010007427 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 279010007428 DNA binding residues [nucleotide binding] 279010007429 drug binding residues [chemical binding]; other site 279010007430 dimer interface [polypeptide binding]; other site 279010007431 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010007432 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 279010007433 MatE; Region: MatE; cl10513 279010007434 MatE; Region: MatE; cl10513 279010007435 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 279010007436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010007437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010007438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010007439 classical (c) SDRs; Region: SDR_c; cd05233 279010007440 NAD(P) binding site [chemical binding]; other site 279010007441 active site 279010007442 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 279010007443 active site 279010007444 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 279010007445 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 279010007446 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 279010007447 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 279010007448 Cytochrome P450; Region: p450; cl12078 279010007449 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 279010007450 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 279010007451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010007452 classical (c) SDRs; Region: SDR_c; cd05233 279010007453 NAD(P) binding site [chemical binding]; other site 279010007454 active site 279010007455 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 279010007456 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 279010007457 substrate binding [chemical binding]; other site 279010007458 active site 279010007459 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 279010007460 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 279010007461 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 279010007462 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 279010007463 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 279010007464 active site 279010007465 phosphorylation site [posttranslational modification] 279010007466 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 279010007467 active pocket/dimerization site; other site 279010007468 active site 279010007469 phosphorylation site [posttranslational modification] 279010007470 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 279010007471 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 279010007472 ATP binding site [chemical binding]; other site 279010007473 Walker A motif; other site 279010007474 Walker B motif; other site 279010007475 arginine finger; other site 279010007476 Transcriptional antiterminator [Transcription]; Region: COG3933 279010007477 PRD domain; Region: PRD; cl15445 279010007478 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 279010007479 active pocket/dimerization site; other site 279010007480 active site 279010007481 phosphorylation site [posttranslational modification] 279010007482 PRD domain; Region: PRD; cl15445 279010007483 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 279010007484 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 279010007485 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 279010007486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010007487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010007488 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 279010007489 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 279010007490 DNA binding site [nucleotide binding] 279010007491 active site 279010007492 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 279010007493 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 279010007494 active site 279010007495 catalytic tetrad [active] 279010007496 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 279010007497 putative substrate translocation pore; other site 279010007498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010007499 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007500 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 279010007501 active site pocket [active] 279010007502 oxyanion hole [active] 279010007503 catalytic triad [active] 279010007504 active site nucleophile [active] 279010007505 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 279010007506 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 279010007507 active site 279010007508 Cupin domain; Region: Cupin_2; cl09118 279010007509 Cupin domain; Region: Cupin_2; cl09118 279010007510 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 279010007511 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 279010007512 putative ligand binding residues [chemical binding]; other site 279010007513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010007514 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007515 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 279010007516 putative dimerization interface [polypeptide binding]; other site 279010007517 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 279010007518 putative substrate translocation pore; other site 279010007519 Cytochrome P450; Region: p450; cl12078 279010007520 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 279010007521 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010007522 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 279010007523 FAD binding pocket [chemical binding]; other site 279010007524 FAD binding motif [chemical binding]; other site 279010007525 catalytic residues [active] 279010007526 NAD binding pocket [chemical binding]; other site 279010007527 phosphate binding motif [ion binding]; other site 279010007528 beta-alpha-beta structure motif; other site 279010007529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010007530 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007531 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 279010007532 active site 279010007533 catalytic triad [active] 279010007534 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 279010007535 S-adenosylmethionine binding site [chemical binding]; other site 279010007536 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 279010007537 cystathionine beta-lyase; Provisional; Region: PRK07671 279010007538 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 279010007539 homodimer interface [polypeptide binding]; other site 279010007540 substrate-cofactor binding pocket; other site 279010007541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010007542 catalytic residue [active] 279010007543 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279010007544 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 279010007545 dimer interface [polypeptide binding]; other site 279010007546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010007547 catalytic residue [active] 279010007548 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 279010007549 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 279010007550 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 279010007551 S-adenosylmethionine binding site [chemical binding]; other site 279010007552 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 279010007553 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 279010007554 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 279010007555 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279010007556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010007557 domain; Region: GreA_GreB_N; pfam03449 279010007558 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 279010007559 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 279010007560 ATP-binding site [chemical binding]; other site 279010007561 Sugar specificity; other site 279010007562 Pyrimidine base specificity; other site 279010007563 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 279010007564 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 279010007565 Peptidase family U32; Region: Peptidase_U32; cl03113 279010007566 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 279010007567 Peptidase family U32; Region: Peptidase_U32; cl03113 279010007568 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 279010007569 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 279010007570 S-adenosylmethionine binding site [chemical binding]; other site 279010007571 YceG-like family; Region: YceG; pfam02618 279010007572 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 279010007573 dimerization interface [polypeptide binding]; other site 279010007574 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 279010007575 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 279010007576 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 279010007577 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 279010007578 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 279010007579 motif 1; other site 279010007580 active site 279010007581 motif 2; other site 279010007582 motif 3; other site 279010007583 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 279010007584 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 279010007585 Domain of unknown function DUF20; Region: UPF0118; cl00465 279010007586 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 279010007587 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 279010007588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010007589 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 279010007590 binding surface 279010007591 TPR motif; other site 279010007592 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 279010007593 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 279010007594 binding surface 279010007595 TPR motif; other site 279010007596 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 279010007597 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 279010007598 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 279010007599 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 279010007600 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010007601 catalytic residue [active] 279010007602 Predicted transcriptional regulator [Transcription]; Region: COG1959 279010007603 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007604 recombination factor protein RarA; Reviewed; Region: PRK13342 279010007605 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 279010007606 Walker A motif; other site 279010007607 ATP binding site [chemical binding]; other site 279010007608 Walker B motif; other site 279010007609 arginine finger; other site 279010007610 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 279010007611 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 279010007612 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 279010007613 putative ATP binding site [chemical binding]; other site 279010007614 putative substrate interface [chemical binding]; other site 279010007615 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 279010007616 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 279010007617 dimer interface [polypeptide binding]; other site 279010007618 anticodon binding site; other site 279010007619 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 279010007620 homodimer interface [polypeptide binding]; other site 279010007621 motif 1; other site 279010007622 active site 279010007623 motif 2; other site 279010007624 GAD domain; Region: GAD; pfam02938 279010007625 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 279010007626 motif 3; other site 279010007627 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 279010007628 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 279010007629 dimer interface [polypeptide binding]; other site 279010007630 motif 1; other site 279010007631 active site 279010007632 motif 2; other site 279010007633 motif 3; other site 279010007634 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 279010007635 anticodon binding site; other site 279010007636 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 279010007637 Bacterial SH3 domain; Region: SH3_3; cl02551 279010007638 Bacterial SH3 domain; Region: SH3_3; cl02551 279010007639 Bacterial SH3 domain; Region: SH3_3; cl02551 279010007640 Bacterial SH3 domain; Region: SH3_3; cl02551 279010007641 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 279010007642 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 279010007643 active site 279010007644 metal binding site [ion binding]; metal-binding site 279010007645 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 279010007646 putative active site [active] 279010007647 dimerization interface [polypeptide binding]; other site 279010007648 putative tRNAtyr binding site [nucleotide binding]; other site 279010007649 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 279010007650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010007651 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 279010007652 synthetase active site [active] 279010007653 NTP binding site [chemical binding]; other site 279010007654 metal binding site [ion binding]; metal-binding site 279010007655 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 279010007656 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 279010007657 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010007658 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 279010007659 DHH family; Region: DHH; pfam01368 279010007660 DHHA1 domain; Region: DHHA1; pfam02272 279010007661 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 279010007662 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 279010007663 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 279010007664 Protein export membrane protein; Region: SecD_SecF; cl14618 279010007665 Protein export membrane protein; Region: SecD_SecF; cl14618 279010007666 stage V sporulation protein B; Region: spore_V_B; TIGR02900 279010007667 MatE; Region: MatE; cl10513 279010007668 MatE; Region: MatE; cl10513 279010007669 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010007670 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 279010007671 Preprotein translocase subunit; Region: YajC; cl00806 279010007672 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 279010007673 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 279010007674 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 279010007675 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 279010007676 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 279010007677 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 279010007678 Walker A motif; other site 279010007679 ATP binding site [chemical binding]; other site 279010007680 Walker B motif; other site 279010007681 arginine finger; other site 279010007682 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 279010007683 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 279010007684 RuvA N terminal domain; Region: RuvA_N; pfam01330 279010007685 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 279010007686 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 279010007687 BofC C-terminal domain; Region: BofC_C; pfam08955 279010007688 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010007689 active site 279010007690 ATP binding site [chemical binding]; other site 279010007691 substrate binding site [chemical binding]; other site 279010007692 Small acid-soluble spore protein H family; Region: SspH; cl06949 279010007693 DinB superfamily; Region: DinB_2; cl00986 279010007694 Protein of unknown function (DUF867); Region: DUF867; cl01713 279010007695 Domain of unknown function DUF28; Region: DUF28; cl00361 279010007696 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 279010007697 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 279010007698 putative peptidoglycan binding site; other site 279010007699 Quinolinate synthetase A protein; Region: NadA; cl00420 279010007700 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 279010007701 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 279010007702 dimerization interface [polypeptide binding]; other site 279010007703 active site 279010007704 L-aspartate oxidase; Provisional; Region: PRK08071 279010007705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007706 domain; Region: Succ_DH_flav_C; pfam02910 279010007707 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 279010007708 Aminotransferase class-V; Region: Aminotran_5; pfam00266 279010007709 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010007710 catalytic residue [active] 279010007711 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 279010007712 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007713 3H domain; Region: 3H; pfam02829 279010007714 prephenate dehydratase; Provisional; Region: PRK11898 279010007715 Prephenate dehydratase; Region: PDT; pfam00800 279010007716 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 279010007717 putative L-Phe binding site [chemical binding]; other site 279010007718 hypothetical protein; Provisional; Region: PRK04435 279010007719 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 279010007720 GTPase CgtA; Reviewed; Region: obgE; PRK12297 279010007721 GTP1/OBG; Region: GTP1_OBG; pfam01018 279010007722 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 279010007723 G1 box; other site 279010007724 GTP/Mg2+ binding site [chemical binding]; other site 279010007725 Switch I region; other site 279010007726 G2 box; other site 279010007727 G3 box; other site 279010007728 Switch II region; other site 279010007729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010007730 G4 box; other site 279010007731 G4 box; other site 279010007732 G5 box; other site 279010007733 G5 box; other site 279010007734 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 279010007735 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 279010007736 Protein of unknown function (DUF464); Region: DUF464; cl01080 279010007737 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 279010007738 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 279010007739 active site 279010007740 putative substrate binding region [chemical binding]; other site 279010007741 Peptidase family M23; Region: Peptidase_M23; pfam01551 279010007742 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 279010007743 putative hydrophobic ligand binding site [chemical binding]; other site 279010007744 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 279010007745 dimerization interface [polypeptide binding]; other site 279010007746 putative DNA binding site [nucleotide binding]; other site 279010007747 putative Zn2+ binding site [ion binding]; other site 279010007748 septum site-determining protein MinD; Region: minD_bact; TIGR01968 279010007749 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 279010007750 Switch I; other site 279010007751 Switch II; other site 279010007752 septum formation inhibitor; Reviewed; Region: minC; PRK00513 279010007753 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 279010007754 rod shape-determining protein MreD; Region: MreD; cl01087 279010007755 rod shape-determining protein MreC; Provisional; Region: PRK13922 279010007756 bZIP transcription factor; Region: bZIP_1; cl02576 279010007757 rod shape-determining protein MreC; Region: MreC; pfam04085 279010007758 rod shape-determining protein MreB; Provisional; Region: PRK13927 279010007759 Cell division protein FtsA; Region: FtsA; cl11496 279010007760 hypothetical protein; Reviewed; Region: PRK00024 279010007761 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 279010007762 MPN+ (JAMM) motif; other site 279010007763 Zinc-binding site [ion binding]; other site 279010007764 Maf-like protein; Region: Maf; pfam02545 279010007765 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 279010007766 active site 279010007767 dimer interface [polypeptide binding]; other site 279010007768 Sporulation related domain; Region: SPOR; cl10051 279010007769 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 279010007770 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 279010007771 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 279010007772 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010007773 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279010007774 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 279010007775 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279010007776 active site 279010007777 HIGH motif; other site 279010007778 nucleotide binding site [chemical binding]; other site 279010007779 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 279010007780 active site 279010007781 KMSKS motif; other site 279010007782 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 279010007783 tRNA binding surface [nucleotide binding]; other site 279010007784 anticodon binding site; other site 279010007785 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 279010007786 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010007787 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 279010007788 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 279010007789 putative peptidoglycan binding site; other site 279010007790 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 279010007791 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 279010007792 inhibitor-cofactor binding pocket; inhibition site 279010007793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010007794 catalytic residue [active] 279010007795 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 279010007796 dimer interface [polypeptide binding]; other site 279010007797 active site 279010007798 Schiff base residues; other site 279010007799 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 279010007800 active site 279010007801 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 279010007802 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 279010007803 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 279010007804 domain interfaces; other site 279010007805 active site 279010007806 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 279010007807 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 279010007808 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 279010007809 tRNA; other site 279010007810 putative tRNA binding site [nucleotide binding]; other site 279010007811 putative NADP binding site [chemical binding]; other site 279010007812 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 279010007813 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 279010007814 G1 box; other site 279010007815 GTP/Mg2+ binding site [chemical binding]; other site 279010007816 Switch I region; other site 279010007817 G2 box; other site 279010007818 G3 box; other site 279010007819 Switch II region; other site 279010007820 G4 box; other site 279010007821 G5 box; other site 279010007822 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 279010007823 Found in ATP-dependent protease La (LON); Region: LON; smart00464 279010007824 Found in ATP-dependent protease La (LON); Region: LON; smart00464 279010007825 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 279010007826 Walker A motif; other site 279010007827 ATP binding site [chemical binding]; other site 279010007828 Walker B motif; other site 279010007829 arginine finger; other site 279010007830 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 279010007831 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 279010007832 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 279010007833 Walker A motif; other site 279010007834 ATP binding site [chemical binding]; other site 279010007835 Walker B motif; other site 279010007836 arginine finger; other site 279010007837 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 279010007838 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 279010007839 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 279010007840 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 279010007841 Walker A motif; other site 279010007842 ATP binding site [chemical binding]; other site 279010007843 Walker B motif; other site 279010007844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 279010007845 trigger factor; Provisional; Region: tig; PRK01490 279010007846 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 279010007847 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 279010007848 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 279010007849 binding surface 279010007850 TPR motif; other site 279010007851 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 279010007852 substrate binding site [chemical binding]; other site 279010007853 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 279010007854 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 279010007855 substrate binding site [chemical binding]; other site 279010007856 ligand binding site [chemical binding]; other site 279010007857 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 279010007858 tartrate dehydrogenase; Provisional; Region: PRK08194 279010007859 2-isopropylmalate synthase; Validated; Region: PRK00915 279010007860 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 279010007861 active site 279010007862 catalytic residues [active] 279010007863 metal binding site [ion binding]; metal-binding site 279010007864 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 279010007865 ketol-acid reductoisomerase; Provisional; Region: PRK05479 279010007866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007867 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 279010007868 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 279010007869 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 279010007870 putative valine binding site [chemical binding]; other site 279010007871 dimer interface [polypeptide binding]; other site 279010007872 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 279010007873 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 279010007874 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279010007875 PYR/PP interface [polypeptide binding]; other site 279010007876 dimer interface [polypeptide binding]; other site 279010007877 TPP binding site [chemical binding]; other site 279010007878 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 279010007879 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 279010007880 TPP-binding site [chemical binding]; other site 279010007881 dimer interface [polypeptide binding]; other site 279010007882 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 279010007883 homodimer interface [polypeptide binding]; other site 279010007884 substrate-cofactor binding pocket; other site 279010007885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010007886 Aminotransferase class IV; Region: Aminotran_4; pfam01063 279010007887 catalytic residue [active] 279010007888 glutamate dehydrogenase; Provisional; Region: PRK09414 279010007889 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 279010007890 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 279010007891 NAD(P) binding site [chemical binding]; other site 279010007892 Phage-related protein [Function unknown]; Region: COG4695; cl01923 279010007893 Phage terminase large subunit; Region: Terminase_3; cl12054 279010007894 Terminase-like family; Region: Terminase_6; pfam03237 279010007895 Uncharacterized conserved protein [Function unknown]; Region: COG5484 279010007896 Phage terminase small subunit; Region: Phage_terminase; pfam10668 279010007897 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 279010007898 binding surface 279010007899 TPR motif; other site 279010007900 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 279010007901 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010007902 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 279010007903 active site 279010007904 metal binding site [ion binding]; metal-binding site 279010007905 homotetramer interface [polypeptide binding]; other site 279010007906 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 279010007907 active site 279010007908 dimerization interface [polypeptide binding]; other site 279010007909 ribonuclease PH; Reviewed; Region: rph; PRK00173 279010007910 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 279010007911 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 279010007912 Sporulation and spore germination; Region: Germane; cl11253 279010007913 Spore germination protein [General function prediction only]; Region: COG5401 279010007914 Sporulation and spore germination; Region: Germane; cl11253 279010007915 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 279010007916 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007917 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 279010007918 DNA binding residues [nucleotide binding] 279010007919 dimerization interface [polypeptide binding]; other site 279010007920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007921 short chain dehydrogenase; Provisional; Region: PRK05693 279010007922 NAD(P) binding site [chemical binding]; other site 279010007923 active site 279010007924 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 279010007925 active site 279010007926 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 279010007927 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 279010007928 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 279010007929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010007930 domain; Region: Succ_DH_flav_C; pfam02910 279010007931 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 279010007932 putative Iron-sulfur protein interface [polypeptide binding]; other site 279010007933 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 279010007934 proximal heme binding site [chemical binding]; other site 279010007935 distal heme binding site [chemical binding]; other site 279010007936 putative dimer interface [polypeptide binding]; other site 279010007937 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 279010007938 aspartate kinase; Reviewed; Region: PRK06635 279010007939 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 279010007940 putative nucleotide binding site [chemical binding]; other site 279010007941 putative catalytic residues [active] 279010007942 putative Mg ion binding site [ion binding]; other site 279010007943 putative aspartate binding site [chemical binding]; other site 279010007944 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 279010007945 putative allosteric regulatory site; other site 279010007946 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 279010007947 putative allosteric regulatory residue; other site 279010007948 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 279010007949 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 279010007950 GIY-YIG motif/motif A; other site 279010007951 active site 279010007952 catalytic site [active] 279010007953 putative DNA binding site [nucleotide binding]; other site 279010007954 metal binding site [ion binding]; metal-binding site 279010007955 UvrB/uvrC motif; Region: UVR; pfam02151 279010007956 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 279010007957 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 279010007958 catalytic residues [active] 279010007959 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 279010007960 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 279010007961 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 279010007962 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 279010007963 Ligand binding site [chemical binding]; other site 279010007964 Electron transfer flavoprotein domain; Region: ETF; pfam01012 279010007965 enoyl-CoA hydratase; Provisional; Region: PRK07658 279010007966 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 279010007967 substrate binding site [chemical binding]; other site 279010007968 oxyanion hole (OAH) forming residues; other site 279010007969 trimer interface [polypeptide binding]; other site 279010007970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010007971 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010007972 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 279010007973 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 279010007974 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010007975 Predicted membrane protein [Function unknown]; Region: COG3766 279010007976 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 279010007977 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 279010007978 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 279010007979 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 279010007980 Walker A/P-loop; other site 279010007981 ATP binding site [chemical binding]; other site 279010007982 Q-loop/lid; other site 279010007983 ABC transporter signature motif; other site 279010007984 Walker B; other site 279010007985 D-loop; other site 279010007986 H-loop/switch region; other site 279010007987 Smr domain; Region: Smr; cl02619 279010007988 hypothetical protein; Provisional; Region: PRK08609 279010007989 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 279010007990 active site 279010007991 primer binding site [nucleotide binding]; other site 279010007992 NTP binding site [chemical binding]; other site 279010007993 metal binding triad [ion binding]; metal-binding site 279010007994 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 279010007995 Colicin V production protein; Region: Colicin_V; cl00567 279010007996 Cell division protein ZapA; Region: ZapA; cl01146 279010007997 ribonuclease HIII; Provisional; Region: PRK00996 279010007998 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 279010007999 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 279010008000 RNA/DNA hybrid binding site [nucleotide binding]; other site 279010008001 active site 279010008002 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 279010008003 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 279010008004 Walker A/P-loop; other site 279010008005 ATP binding site [chemical binding]; other site 279010008006 Q-loop/lid; other site 279010008007 ABC transporter signature motif; other site 279010008008 Walker B; other site 279010008009 D-loop; other site 279010008010 H-loop/switch region; other site 279010008011 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 279010008012 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 279010008013 putative tRNA-binding site [nucleotide binding]; other site 279010008014 B3/4 domain; Region: B3_4; cl11458 279010008015 tRNA synthetase B5 domain; Region: B5; cl08394 279010008016 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 279010008017 dimer interface [polypeptide binding]; other site 279010008018 motif 1; other site 279010008019 motif 3; other site 279010008020 motif 2; other site 279010008021 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 279010008022 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 279010008023 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 279010008024 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 279010008025 dimer interface [polypeptide binding]; other site 279010008026 motif 1; other site 279010008027 active site 279010008028 motif 2; other site 279010008029 motif 3; other site 279010008030 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 279010008031 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 279010008032 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 279010008033 small acid-soluble spore protein SspI; Provisional; Region: PRK02955; cl07940 279010008034 Carbon starvation protein CstA; Region: CstA; cl00856 279010008035 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 279010008036 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 279010008037 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 279010008038 dimer interface [polypeptide binding]; other site 279010008039 conserved gate region; other site 279010008040 putative PBP binding loops; other site 279010008041 ABC-ATPase subunit interface; other site 279010008042 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 279010008043 dimer interface [polypeptide binding]; other site 279010008044 conserved gate region; other site 279010008045 putative PBP binding loops; other site 279010008046 ABC-ATPase subunit interface; other site 279010008047 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010008048 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 279010008049 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 279010008050 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 279010008051 active site 279010008052 metal binding site [ion binding]; metal-binding site 279010008053 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 279010008054 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; cd00398 279010008055 intersubunit interface [polypeptide binding]; other site 279010008056 active site 279010008057 Zn2+ binding site [ion binding]; other site 279010008058 ribulokinase; Provisional; Region: PRK04123 279010008059 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 279010008060 putative active site [active] 279010008061 putative MgATP binding site [chemical binding]; other site 279010008062 putative N- and C-terminal domain interface [polypeptide binding]; other site 279010008063 carbohydrate binding site [chemical binding]; other site 279010008064 metal binding site [ion binding]; metal-binding site 279010008065 homodimer interface [polypeptide binding]; other site 279010008066 L-arabinose isomerase; Provisional; Region: PRK02929 279010008067 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 279010008068 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 279010008069 trimer interface [polypeptide binding]; other site 279010008070 putative substrate binding site [chemical binding]; other site 279010008071 putative metal binding site [ion binding]; other site 279010008072 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 279010008073 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 279010008074 substrate binding site [chemical binding]; other site 279010008075 active site 279010008076 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 279010008077 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 279010008078 oligomer interface [polypeptide binding]; other site 279010008079 active site 279010008080 metal binding site [ion binding]; metal-binding site 279010008081 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 279010008082 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 279010008083 23S rRNA binding site [nucleotide binding]; other site 279010008084 L21 binding site [polypeptide binding]; other site 279010008085 L13 binding site [polypeptide binding]; other site 279010008086 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 279010008087 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 279010008088 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 279010008089 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 279010008090 LrgB-like family; Region: LrgB; cl00596 279010008091 LrgA family; Region: LrgA; cl00608 279010008092 PhoD-like phosphatase; Region: PhoD; pfam09423 279010008093 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 279010008094 putative active site [active] 279010008095 putative metal binding site [ion binding]; other site 279010008096 two-component response regulator; Provisional; Region: PRK14084 279010008097 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 279010008098 active site 279010008099 phosphorylation site [posttranslational modification] 279010008100 intermolecular recognition site; other site 279010008101 dimerization interface [polypeptide binding]; other site 279010008102 LytTr DNA-binding domain; Region: LytTR; cl04498 279010008103 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 279010008104 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 279010008105 GAF domain; Region: GAF; cl00853 279010008106 Histidine kinase; Region: His_kinase; pfam06580 279010008107 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 279010008108 ATP binding site [chemical binding]; other site 279010008109 Mg2+ binding site [ion binding]; other site 279010008110 G-X-G motif; other site 279010008111 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 279010008112 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 279010008113 motif II; other site 279010008114 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 279010008115 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 279010008116 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 279010008117 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 279010008118 active site 279010008119 dimer interface [polypeptide binding]; other site 279010008120 motif 1; other site 279010008121 motif 2; other site 279010008122 motif 3; other site 279010008123 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 279010008124 anticodon binding site; other site 279010008125 YtxC-like family; Region: YtxC; cl08500 279010008126 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010008127 primosomal protein DnaI; Reviewed; Region: PRK08939 279010008128 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 279010008129 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 279010008130 Walker A motif; other site 279010008131 ATP binding site [chemical binding]; other site 279010008132 Walker B motif; other site 279010008133 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 279010008134 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 279010008135 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 279010008136 ATP cone domain; Region: ATP-cone; pfam03477 279010008137 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 279010008138 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 279010008139 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 279010008140 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 279010008141 Pectate lyase; Region: Pec_lyase_C; cl01593 279010008142 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 279010008143 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 279010008144 CoA-binding site [chemical binding]; other site 279010008145 ATP-binding [chemical binding]; other site 279010008146 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 279010008147 Domain of unknown function DUF; Region: DUF204; pfam02659 279010008148 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 279010008149 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 279010008150 DNA binding site [nucleotide binding] 279010008151 catalytic residue [active] 279010008152 H2TH interface [polypeptide binding]; other site 279010008153 putative catalytic residues [active] 279010008154 turnover-facilitating residue; other site 279010008155 intercalation triad [nucleotide binding]; other site 279010008156 8OG recognition residue [nucleotide binding]; other site 279010008157 putative reading head residues; other site 279010008158 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 279010008159 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 279010008160 DNA polymerase I; Provisional; Region: PRK05755 279010008161 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 279010008162 active site 279010008163 metal binding site 1 [ion binding]; metal-binding site 279010008164 putative 5' ssDNA interaction site; other site 279010008165 metal binding site 3; metal-binding site 279010008166 metal binding site 2 [ion binding]; metal-binding site 279010008167 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 279010008168 putative DNA binding site [nucleotide binding]; other site 279010008169 putative metal binding site [ion binding]; other site 279010008170 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 279010008171 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 279010008172 active site 279010008173 DNA binding site [nucleotide binding] 279010008174 catalytic site [active] 279010008175 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 279010008176 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 279010008177 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 279010008178 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 279010008179 dimer interface [polypeptide binding]; other site 279010008180 phosphorylation site [posttranslational modification] 279010008181 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 279010008182 ATP binding site [chemical binding]; other site 279010008183 Mg2+ binding site [ion binding]; other site 279010008184 G-X-G motif; other site 279010008185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010008186 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 279010008187 active site 279010008188 phosphorylation site [posttranslational modification] 279010008189 intermolecular recognition site; other site 279010008190 dimerization interface [polypeptide binding]; other site 279010008191 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 279010008192 DNA binding site [nucleotide binding] 279010008193 malate dehydrogenase; Reviewed; Region: PRK06223 279010008194 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 279010008195 NAD(P) binding site [chemical binding]; other site 279010008196 dimer interface [polypeptide binding]; other site 279010008197 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010008198 substrate binding site [chemical binding]; other site 279010008199 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 279010008200 isocitrate dehydrogenase; Validated; Region: PRK07362 279010008201 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 279010008202 dimer interface [polypeptide binding]; other site 279010008203 Citrate synthase; Region: Citrate_synt; pfam00285 279010008204 active site 279010008205 citrylCoA binding site [chemical binding]; other site 279010008206 oxalacetate/citrate binding site [chemical binding]; other site 279010008207 coenzyme A binding site [chemical binding]; other site 279010008208 catalytic triad [active] 279010008209 Protein of unknown function (DUF441); Region: DUF441; cl01041 279010008210 Domain of unknown function DUF20; Region: UPF0118; cl00465 279010008211 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 279010008212 pyruvate kinase; Provisional; Region: PRK06354 279010008213 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 279010008214 domain interfaces; other site 279010008215 active site 279010008216 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 279010008217 6-phosphofructokinase; Provisional; Region: PRK03202 279010008218 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 279010008219 active site 279010008220 ADP/pyrophosphate binding site [chemical binding]; other site 279010008221 dimerization interface [polypeptide binding]; other site 279010008222 allosteric effector site; other site 279010008223 fructose-1,6-bisphosphate binding site; other site 279010008224 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 279010008225 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010008226 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 279010008227 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 279010008228 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 279010008229 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 279010008230 Malic enzyme, N-terminal domain; Region: malic; pfam00390 279010008231 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 279010008232 putative NAD(P) binding site [chemical binding]; other site 279010008233 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06920 279010008234 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 279010008235 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 279010008236 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 279010008237 generic binding surface I; other site 279010008238 generic binding surface II; other site 279010008239 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 279010008240 DHH family; Region: DHH; pfam01368 279010008241 DHHA1 domain; Region: DHHA1; pfam02272 279010008242 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 279010008243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010008244 DNA-binding site [nucleotide binding]; DNA binding site 279010008245 DRTGG domain; Region: DRTGG; cl12147 279010008246 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 279010008247 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; cd03440 279010008248 active site 2 [active] 279010008249 active site 1 [active] 279010008250 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008251 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 279010008252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010008253 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010008254 classical (c) SDRs; Region: SDR_c; cd05233 279010008255 NAD(P) binding site [chemical binding]; other site 279010008256 active site 279010008257 argininosuccinate lyase; Provisional; Region: PRK00855 279010008258 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 279010008259 active sites [active] 279010008260 tetramer interface [polypeptide binding]; other site 279010008261 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 279010008262 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 279010008263 ANP binding site [chemical binding]; other site 279010008264 Substrate Binding Site II [chemical binding]; other site 279010008265 Substrate Binding Site I [chemical binding]; other site 279010008266 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 279010008267 MPT binding site; other site 279010008268 trimer interface [polypeptide binding]; other site 279010008269 Acetokinase family; Region: Acetate_kinase; cl01029 279010008270 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 279010008271 S-adenosylmethionine binding site [chemical binding]; other site 279010008272 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 279010008273 dimer interface [polypeptide binding]; other site 279010008274 catalytic triad [active] 279010008275 peroxidatic and resolving cysteines [active] 279010008276 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 279010008277 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 279010008278 RDD family; Region: RDD; cl00746 279010008279 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 279010008280 tandem repeat interface [polypeptide binding]; other site 279010008281 oligomer interface [polypeptide binding]; other site 279010008282 active site residues [active] 279010008283 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 279010008284 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 279010008285 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 279010008286 putative substrate translocation pore; other site 279010008287 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279010008288 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008289 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 279010008290 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010008291 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010008292 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 279010008293 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 279010008294 THUMP domain; Region: THUMP; cl12076 279010008295 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 279010008296 Ligand Binding Site [chemical binding]; other site 279010008297 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 279010008298 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 279010008299 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010008300 catalytic residue [active] 279010008301 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 279010008302 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008303 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008304 putative transposase OrfB; Reviewed; Region: PHA02517 279010008305 Integrase core domain; Region: rve; cl01316 279010008306 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 279010008307 histidinol-phosphatase; Reviewed; Region: PRK08123 279010008308 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010008309 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008310 GAF domain; Region: GAF; cl00853 279010008311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279010008312 metal binding site [ion binding]; metal-binding site 279010008313 active site 279010008314 I-site; other site 279010008315 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 279010008316 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 279010008317 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 279010008318 RNA binding surface [nucleotide binding]; other site 279010008319 Protein of unknown function (DUF805); Region: DUF805; cl01224 279010008320 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010008321 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008322 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 279010008323 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 279010008324 active site 279010008325 HIGH motif; other site 279010008326 dimer interface [polypeptide binding]; other site 279010008327 KMSKS motif; other site 279010008328 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 279010008329 RNA binding surface [nucleotide binding]; other site 279010008330 acetyl-CoA synthetase; Provisional; Region: PRK04319 279010008331 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 279010008332 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010008333 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010008334 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010008335 FOG: CBS domain [General function prediction only]; Region: COG0517 279010008336 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 279010008337 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 279010008338 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 279010008339 flagellar motor protein MotS; Reviewed; Region: PRK06925 279010008340 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279010008341 ligand binding site [chemical binding]; other site 279010008342 flagellar motor protein MotP; Reviewed; Region: PRK06926 279010008343 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 279010008344 catabolite control protein A; Region: ccpA; TIGR01481 279010008345 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010008346 DNA binding site [nucleotide binding] 279010008347 domain linker motif; other site 279010008348 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 279010008349 dimerization interface [polypeptide binding]; other site 279010008350 effector binding site; other site 279010008351 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 279010008352 Chorismate mutase type II; Region: CM_2; cl00693 279010008353 NeuB family; Region: NeuB; cl00496 279010008354 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 279010008355 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 279010008356 YtxH-like protein; Region: YtxH; cl02079 279010008357 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 279010008358 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 279010008359 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279010008360 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010008361 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279010008362 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 279010008363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010008364 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 279010008365 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 279010008366 putative tRNA-binding site [nucleotide binding]; other site 279010008367 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 279010008368 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 279010008369 catalytic residues [active] 279010008370 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 279010008371 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 279010008372 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 279010008373 oligomer interface [polypeptide binding]; other site 279010008374 active site 279010008375 metal binding site [ion binding]; metal-binding site 279010008376 Predicted small secreted protein [Function unknown]; Region: COG5584 279010008377 malate dehydrogenase; Provisional; Region: PRK13529 279010008378 Malic enzyme, N-terminal domain; Region: malic; pfam00390 279010008379 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 279010008380 NAD(P) binding site [chemical binding]; other site 279010008381 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010008382 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 279010008383 S-adenosylmethionine binding site [chemical binding]; other site 279010008384 Phosphotransferase enzyme family; Region: APH; pfam01636 279010008385 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 279010008386 active site 279010008387 substrate binding site [chemical binding]; other site 279010008388 ATP binding site [chemical binding]; other site 279010008389 pullulanase, type I; Region: pulA_typeI; TIGR02104 279010008390 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 279010008391 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010008392 lipid kinase, YegS/Rv2252/BmrU family; Region: TIGR00147 279010008393 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 279010008394 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 279010008395 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 279010008396 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 279010008397 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279010008398 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 279010008399 dimer interface [polypeptide binding]; other site 279010008400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010008401 catalytic residue [active] 279010008402 Protein of unknown function (DUF2691); Region: DUF2691; pfam10903 279010008403 dipeptidase PepV; Reviewed; Region: PRK07318 279010008404 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 279010008405 active site 279010008406 metal binding site [ion binding]; metal-binding site 279010008407 Permease family; Region: Xan_ur_permease; cl00967 279010008408 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008409 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 279010008410 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 279010008411 RNA binding surface [nucleotide binding]; other site 279010008412 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 279010008413 active site 279010008414 uracil binding [chemical binding]; other site 279010008415 stage V sporulation protein B; Region: spore_V_B; TIGR02900 279010008416 MatE; Region: MatE; cl10513 279010008417 Predicted flavoproteins [General function prediction only]; Region: COG2081 279010008418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008419 BCCT family transporter; Region: BCCT; cl00569 279010008420 Protein of unknown function (DUF2758); Region: DUF2758; pfam10957 279010008421 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 279010008422 active site residue [active] 279010008423 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 279010008424 TPR motif; other site 279010008425 binding surface 279010008426 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 279010008427 Protein of unknown function, DUF624; Region: DUF624; cl02369 279010008428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008429 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010008430 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 279010008431 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 279010008432 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 279010008433 ABC-ATPase subunit interface; other site 279010008434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010008435 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010008436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010008437 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010008438 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 279010008439 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010008440 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 279010008441 dimer interface [polypeptide binding]; other site 279010008442 conserved gate region; other site 279010008443 putative PBP binding loops; other site 279010008444 ABC-ATPase subunit interface; other site 279010008445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008446 NAD(P) binding site [chemical binding]; other site 279010008447 active site 279010008448 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 279010008449 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 279010008450 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 279010008451 Amino acid permease; Region: AA_permease; cl00524 279010008452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279010008453 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008454 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 279010008455 dimerization interface [polypeptide binding]; other site 279010008456 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010008457 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 279010008458 active site 279010008459 metal binding site [ion binding]; metal-binding site 279010008460 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 279010008461 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 279010008462 HIGH motif; other site 279010008463 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 279010008464 active site 279010008465 KMSKS motif; other site 279010008466 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 279010008467 tRNA binding surface [nucleotide binding]; other site 279010008468 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 279010008469 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010008470 putative substrate translocation pore; other site 279010008471 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010008472 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 279010008473 FtsX-like permease family; Region: FtsX; pfam02687 279010008474 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010008475 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 279010008476 Walker A/P-loop; other site 279010008477 ATP binding site [chemical binding]; other site 279010008478 Q-loop/lid; other site 279010008479 ABC transporter signature motif; other site 279010008480 Walker B; other site 279010008481 D-loop; other site 279010008482 H-loop/switch region; other site 279010008483 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010008484 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 279010008485 Walker A/P-loop; other site 279010008486 ATP binding site [chemical binding]; other site 279010008487 Q-loop/lid; other site 279010008488 ABC transporter signature motif; other site 279010008489 Walker B; other site 279010008490 D-loop; other site 279010008491 H-loop/switch region; other site 279010008492 Predicted transcriptional regulators [Transcription]; Region: COG1725 279010008493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010008494 DNA-binding site [nucleotide binding]; DNA binding site 279010008495 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 279010008496 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 279010008497 hypothetical protein; Provisional; Region: PRK08317 279010008498 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; cl12011 279010008499 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 279010008500 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 279010008501 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 279010008502 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 279010008503 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 279010008504 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 279010008505 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 279010008506 trimer interface [polypeptide binding]; other site 279010008507 putative metal binding site [ion binding]; other site 279010008508 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 279010008509 active site 279010008510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010008511 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 279010008512 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 279010008513 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 279010008514 active site 279010008515 dimer interface [polypeptide binding]; other site 279010008516 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 279010008517 Ligand Binding Site [chemical binding]; other site 279010008518 Molecular Tunnel; other site 279010008519 S-adenosylmethionine synthetase; Validated; Region: PRK05250 279010008520 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 279010008521 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 279010008522 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 279010008523 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 279010008524 active site 279010008525 substrate-binding site [chemical binding]; other site 279010008526 metal-binding site [ion binding] 279010008527 ATP binding site [chemical binding]; other site 279010008528 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 279010008529 Protein of unknown function (DUF2584); Region: DUF2584; pfam10763 279010008530 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 279010008531 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 279010008532 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010008533 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 279010008534 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 279010008535 Walker A/P-loop; other site 279010008536 ATP binding site [chemical binding]; other site 279010008537 Q-loop/lid; other site 279010008538 ABC transporter signature motif; other site 279010008539 Walker B; other site 279010008540 D-loop; other site 279010008541 H-loop/switch region; other site 279010008542 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 279010008543 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 279010008544 dimer interface [polypeptide binding]; other site 279010008545 conserved gate region; other site 279010008546 putative PBP binding loops; other site 279010008547 ABC-ATPase subunit interface; other site 279010008548 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 279010008549 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 279010008550 nudix motif; other site 279010008551 Holin family; Region: Phage_holin_4; cl01989 279010008552 Ferritin-like domain; Region: Ferritin; pfam00210 279010008553 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 279010008554 dimerization interface [polypeptide binding]; other site 279010008555 DPS ferroxidase diiron center [ion binding]; other site 279010008556 ion pore; other site 279010008557 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 279010008558 Domain of unknown function DUF37; Region: DUF37; cl00506 279010008559 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 279010008560 active site clefts [active] 279010008561 zinc binding site [ion binding]; other site 279010008562 dimer interface [polypeptide binding]; other site 279010008563 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 279010008564 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010008565 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 279010008566 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 279010008567 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 279010008568 intersubunit interface [polypeptide binding]; other site 279010008569 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 279010008570 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 279010008571 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 279010008572 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 279010008573 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 279010008574 o-succinylbenzoic acid (OSB) synthetase; Region: menC_lowGC/arch; TIGR01928 279010008575 active site 279010008576 octamer interface [polypeptide binding]; other site 279010008577 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010008578 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279010008579 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 279010008580 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 279010008581 substrate binding site [chemical binding]; other site 279010008582 oxyanion hole (OAH) forming residues; other site 279010008583 trimer interface [polypeptide binding]; other site 279010008584 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 279010008585 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 279010008586 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 279010008587 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 279010008588 dimer interface [polypeptide binding]; other site 279010008589 tetramer interface [polypeptide binding]; other site 279010008590 PYR/PP interface [polypeptide binding]; other site 279010008591 TPP binding site [chemical binding]; other site 279010008592 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 279010008593 TPP-binding site; other site 279010008594 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 279010008595 chorismate binding enzyme; Region: Chorismate_bind; cl10555 279010008596 UbiA prenyltransferase family; Region: UbiA; cl00337 279010008597 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 279010008598 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 279010008599 homodimer interface [polypeptide binding]; other site 279010008600 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 279010008601 active site pocket [active] 279010008602 glycogen synthase; Provisional; Region: glgA; PRK00654 279010008603 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 279010008604 ADP-binding pocket [chemical binding]; other site 279010008605 homodimer interface [polypeptide binding]; other site 279010008606 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 279010008607 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 279010008608 ligand binding site; other site 279010008609 oligomer interface; other site 279010008610 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 279010008611 dimer interface [polypeptide binding]; other site 279010008612 N-terminal domain interface [polypeptide binding]; other site 279010008613 sulfate 1 binding site; other site 279010008614 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 279010008615 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 279010008616 ligand binding site; other site 279010008617 oligomer interface; other site 279010008618 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 279010008619 dimer interface [polypeptide binding]; other site 279010008620 N-terminal domain interface [polypeptide binding]; other site 279010008621 sulfate 1 binding site; other site 279010008622 glycogen branching enzyme; Provisional; Region: PRK12313 279010008623 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 279010008624 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010008625 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 279010008626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010008627 DNA-binding site [nucleotide binding]; DNA binding site 279010008628 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010008629 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 279010008630 putative dimerization interface [polypeptide binding]; other site 279010008631 putative ligand binding site [chemical binding]; other site 279010008632 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 279010008633 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 279010008634 active site 279010008635 catalytic site [active] 279010008636 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 279010008637 putative substrate binding pocket [chemical binding]; other site 279010008638 AC domain interface; other site 279010008639 catalytic triad [active] 279010008640 AB domain interface; other site 279010008641 interchain disulfide; other site 279010008642 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279010008643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008644 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 279010008645 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 279010008646 Cation transport protein; Region: TrkH; cl10514 279010008647 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279010008648 EamA-like transporter family; Region: EamA; cl01037 279010008649 DinB superfamily; Region: DinB_2; cl00986 279010008650 MOSC domain; Region: MOSC; pfam03473 279010008651 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 279010008652 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 279010008653 active site 279010008654 NAD binding site [chemical binding]; other site 279010008655 metal binding site [ion binding]; metal-binding site 279010008656 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 279010008657 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010008658 tetramerization interface [polypeptide binding]; other site 279010008659 NAD(P) binding site [chemical binding]; other site 279010008660 catalytic residues [active] 279010008661 Predicted transcriptional regulators [Transcription]; Region: COG1510 279010008662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008663 Sodium:solute symporter family; Region: SSF; cl00456 279010008664 Leucine carboxyl methyltransferase; Region: LCM; cl01306 279010008665 alanine racemase; Region: alr; TIGR00492 279010008666 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 279010008667 active site 279010008668 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279010008669 dimer interface [polypeptide binding]; other site 279010008670 substrate binding site [chemical binding]; other site 279010008671 catalytic residues [active] 279010008672 Virulence factor EsxB; Region: EsxB; pfam10663 279010008673 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 279010008674 Sulfatase; Region: Sulfatase; cl10460 279010008675 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 279010008676 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 279010008677 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 279010008678 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010008679 putative active site [active] 279010008680 putative metal binding site [ion binding]; other site 279010008681 Bacitracin resistance protein BacA; Region: BacA; cl00858 279010008682 Domain of unknown function DUF20; Region: UPF0118; cl00465 279010008683 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279010008684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008685 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 279010008686 proposed catalytic triad [active] 279010008687 conserved cys residue [active] 279010008688 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008689 dimerization interface [polypeptide binding]; other site 279010008690 ligand (aspartate) binding pocket [chemical binding]; other site 279010008691 Cache domain; Region: Cache_1; pfam02743 279010008692 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 279010008693 dimerization interface [polypeptide binding]; other site 279010008694 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 279010008695 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010008696 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008697 dimerization interface [polypeptide binding]; other site 279010008698 ligand (aspartate) binding pocket [chemical binding]; other site 279010008699 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008700 dimerization interface [polypeptide binding]; other site 279010008701 ligand (aspartate) binding pocket [chemical binding]; other site 279010008702 Cache domain; Region: Cache_1; pfam02743 279010008703 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 279010008704 dimerization interface [polypeptide binding]; other site 279010008705 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010008706 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008707 dimerization interface [polypeptide binding]; other site 279010008708 ligand (aspartate) binding pocket [chemical binding]; other site 279010008709 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008710 dimerization interface [polypeptide binding]; other site 279010008711 ligand (aspartate) binding pocket [chemical binding]; other site 279010008712 Cache domain; Region: Cache_1; pfam02743 279010008713 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 279010008714 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 279010008715 dimerization interface [polypeptide binding]; other site 279010008716 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010008717 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010008718 dimerization interface [polypeptide binding]; other site 279010008719 ligand (aspartate) binding pocket [chemical binding]; other site 279010008720 transglutaminase; Provisional; Region: tgl; PRK03187 279010008721 Nitronate monooxygenase; Region: NMO; pfam03060 279010008722 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 279010008723 FMN binding site [chemical binding]; other site 279010008724 substrate binding site [chemical binding]; other site 279010008725 putative catalytic residue [active] 279010008726 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 279010008727 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 279010008728 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 279010008729 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010008730 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008731 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 279010008732 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279010008733 Domain of unknown function DUF21; Region: DUF21; pfam01595 279010008734 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 279010008735 Transporter associated domain; Region: CorC_HlyC; cl08393 279010008736 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 279010008737 YugN-like family; Region: YugN; pfam08868 279010008738 Protein of unknown function (DUF421); Region: DUF421; cl00990 279010008739 TspO/MBR family; Region: TspO_MBR; cl01379 279010008740 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010008741 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 279010008742 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 279010008743 active site 279010008744 dimer interface [polypeptide binding]; other site 279010008745 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 279010008746 dimer interface [polypeptide binding]; other site 279010008747 active site 279010008748 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 279010008749 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 279010008750 dimer interface [polypeptide binding]; other site 279010008751 active site 279010008752 metal binding site [ion binding]; metal-binding site 279010008753 Domain of unknown function (DUF378); Region: DUF378; cl00943 279010008754 general stress protein 13; Validated; Region: PRK08059 279010008755 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 279010008756 RNA binding site [nucleotide binding]; other site 279010008757 hypothetical protein; Validated; Region: PRK07682 279010008758 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 279010008759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010008760 homodimer interface [polypeptide binding]; other site 279010008761 catalytic residue [active] 279010008762 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008763 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008764 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 279010008765 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279010008766 Domain of unknown function (DUF1871); Region: DUF1871; pfam08958 279010008767 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 279010008768 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 279010008769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010008770 homodimer interface [polypeptide binding]; other site 279010008771 catalytic residue [active] 279010008772 Kinase associated protein B; Region: KapB; pfam08810 279010008773 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 279010008774 active site 279010008775 substrate binding site [chemical binding]; other site 279010008776 catalytic site [active] 279010008777 drug efflux system protein MdtG; Provisional; Region: PRK09874 279010008778 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 279010008779 putative substrate translocation pore; other site 279010008780 Transglycosylase; Region: Transgly; cl07896 279010008781 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 279010008782 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010008783 Protein of unknown function, DUF393; Region: DUF393; cl01136 279010008784 Meckelin (Transmembrane protein 67); Region: Meckelin; pfam09773 279010008785 sensory histidine kinase DcuS; Provisional; Region: PRK11086 279010008786 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 279010008787 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 279010008788 ATP binding site [chemical binding]; other site 279010008789 Mg2+ binding site [ion binding]; other site 279010008790 G-X-G motif; other site 279010008791 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 279010008792 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 279010008793 active site 279010008794 phosphorylation site [posttranslational modification] 279010008795 intermolecular recognition site; other site 279010008796 dimerization interface [polypeptide binding]; other site 279010008797 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 279010008798 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 279010008799 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 279010008800 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008801 putative transposase OrfB; Reviewed; Region: PHA02517 279010008802 Integrase core domain; Region: rve; cl01316 279010008803 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008804 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 279010008805 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 279010008806 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 279010008807 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 279010008808 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 279010008809 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 279010008810 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 279010008811 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 279010008812 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 279010008813 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 279010008814 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 279010008815 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 279010008816 CoenzymeA binding site [chemical binding]; other site 279010008817 subunit interaction site [polypeptide binding]; other site 279010008818 PHB binding site; other site 279010008819 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010008820 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 279010008821 active site 279010008822 phosphorylation site [posttranslational modification] 279010008823 intermolecular recognition site; other site 279010008824 dimerization interface [polypeptide binding]; other site 279010008825 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 279010008826 DNA binding residues [nucleotide binding] 279010008827 dimerization interface [polypeptide binding]; other site 279010008828 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008829 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008830 putative transposase OrfB; Reviewed; Region: PHA02517 279010008831 Integrase core domain; Region: rve; cl01316 279010008832 Bacillus competence pheromone ComX; Region: ComX; pfam05952 279010008833 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 279010008834 substrate binding pocket [chemical binding]; other site 279010008835 aspartate-rich region 2; other site 279010008836 substrate-Mg2+ binding site; other site 279010008837 DegQ (SacQ) family; Region: DegQ; pfam08181 279010008838 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 279010008839 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 279010008840 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 279010008841 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 279010008842 active site 279010008843 Isochorismatase family; Region: Isochorismatase; pfam00857 279010008844 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 279010008845 catalytic triad [active] 279010008846 conserved cis-peptide bond; other site 279010008847 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 279010008848 Spore germination protein gerPA/gerPF; Region: gerPA; pfam10676 279010008849 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 279010008850 Domain of unknown function DUF20; Region: UPF0118; cl00465 279010008851 Rrf2 family protein; Region: rrf2_super; TIGR00738 279010008852 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008853 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 279010008854 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 279010008855 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010008856 short chain dehydrogenase; Provisional; Region: PRK06924 279010008857 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 279010008858 NADP binding site [chemical binding]; other site 279010008859 homodimer interface [polypeptide binding]; other site 279010008860 active site 279010008861 Firmicute eSAT-6 protein secretion system EssA; Region: EssA; cl11266 279010008862 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 279010008863 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 279010008864 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 279010008865 Predicted membrane protein [Function unknown]; Region: COG1511 279010008866 Haemolysin XhlA; Region: XhlA; pfam10779 279010008867 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; cl03075 279010008868 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 279010008869 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 279010008870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010008871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010008872 Domain of unknown function DUF87; Region: DUF87; pfam01935 279010008873 Predicted membrane protein essB; Region: essB; cl01868 279010008874 YukD; Region: YukD; cl11566 279010008875 Proteins of 100 residues with WXG; Region: WXG100; cl02005 279010008876 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010008877 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 279010008878 alanine dehydrogenase; Region: alaDH; TIGR00518 279010008879 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 279010008880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008881 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 279010008882 Moco binding site; other site 279010008883 metal coordination site [ion binding]; other site 279010008884 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 279010008885 Predicted permease [General function prediction only]; Region: COG2056 279010008886 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010008887 multifunctional aminopeptidase A; Provisional; Region: PRK00913 279010008888 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 279010008889 interface (dimer of trimers) [polypeptide binding]; other site 279010008890 Substrate-binding/catalytic site; other site 279010008891 Zn-binding sites [ion binding]; other site 279010008892 Divergent PAP2 family; Region: DUF212; cl00855 279010008893 3D domain; Region: 3D; cl01439 279010008894 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 279010008895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008896 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 279010008897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008899 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010008900 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 279010008901 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 279010008902 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 279010008903 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 279010008904 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 279010008905 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 279010008906 Nucleoside recognition; Region: Gate; cl00486 279010008907 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 279010008908 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 279010008909 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 279010008910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008911 Protein of unknown function (DUF419); Region: DUF419; cl15265 279010008912 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; cl01382 279010008913 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 279010008914 NifU-like domain; Region: NifU; cl00484 279010008915 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 279010008916 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 279010008917 structural tetrad; other site 279010008918 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 279010008919 homoserine kinase; Provisional; Region: PRK01212 279010008920 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 279010008921 threonine synthase; Reviewed; Region: PRK06721 279010008922 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 279010008923 homodimer interface [polypeptide binding]; other site 279010008924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010008925 catalytic residue [active] 279010008926 homoserine dehydrogenase; Provisional; Region: PRK06349 279010008927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008928 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 279010008929 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 279010008930 glyoxylate reductase; Reviewed; Region: PRK13243 279010008931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008932 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 279010008933 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 279010008934 tetramer interfaces [polypeptide binding]; other site 279010008935 binuclear metal-binding site [ion binding]; other site 279010008936 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 279010008937 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 279010008938 active site 279010008939 motif I; other site 279010008940 motif II; other site 279010008941 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 279010008942 Protein of unknown function DUF86; Region: DUF86; cl01031 279010008943 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 279010008944 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 279010008945 lipoyl synthase; Provisional; Region: PRK05481 279010008946 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 279010008947 FeS/SAM binding site; other site 279010008948 Peptidase family M23; Region: Peptidase_M23; pfam01551 279010008949 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 279010008950 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 279010008951 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 279010008952 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 279010008953 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 279010008954 active site 279010008955 metal binding site [ion binding]; metal-binding site 279010008956 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 279010008957 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 279010008958 Protein of unknown function DUF72; Region: DUF72; cl00777 279010008959 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 279010008960 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010008961 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 279010008962 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 279010008963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010008964 catalytic residue [active] 279010008965 allantoate amidohydrolase; Reviewed; Region: PRK12893 279010008966 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 279010008967 active site 279010008968 metal binding site [ion binding]; metal-binding site 279010008969 dimer interface [polypeptide binding]; other site 279010008970 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 279010008971 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 279010008972 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 279010008973 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010008974 putative substrate translocation pore; other site 279010008975 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010008976 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 279010008977 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279010008978 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279010008979 Endonuclease I; Region: Endonuclease_1; cl01003 279010008980 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 279010008981 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 279010008982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010008983 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 279010008984 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 279010008985 FeS assembly protein SufB; Region: sufB; TIGR01980 279010008986 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 279010008987 trimerization site [polypeptide binding]; other site 279010008988 active site 279010008989 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 279010008990 Aminotransferase class-V; Region: Aminotran_5; pfam00266 279010008991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010008992 catalytic residue [active] 279010008993 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 279010008994 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 279010008995 FeS assembly ATPase SufC; Region: sufC; TIGR01978 279010008996 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 279010008997 Walker A/P-loop; other site 279010008998 ATP binding site [chemical binding]; other site 279010008999 Q-loop/lid; other site 279010009000 ABC transporter signature motif; other site 279010009001 Walker B; other site 279010009002 D-loop; other site 279010009003 H-loop/switch region; other site 279010009004 Cation efflux family; Region: Cation_efflux; cl00316 279010009005 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 279010009006 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 279010009007 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010009008 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 279010009009 dimer interface [polypeptide binding]; other site 279010009010 conserved gate region; other site 279010009011 putative PBP binding loops; other site 279010009012 ABC-ATPase subunit interface; other site 279010009013 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 279010009014 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 279010009015 Walker A/P-loop; other site 279010009016 ATP binding site [chemical binding]; other site 279010009017 Q-loop/lid; other site 279010009018 ABC transporter signature motif; other site 279010009019 Walker B; other site 279010009020 D-loop; other site 279010009021 H-loop/switch region; other site 279010009022 NIL domain; Region: NIL; cl09633 279010009023 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 279010009024 catalytic residues [active] 279010009025 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 279010009026 putative active site [active] 279010009027 putative metal binding site [ion binding]; other site 279010009028 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 279010009029 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 279010009030 lipoyl attachment site [posttranslational modification]; other site 279010009031 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 279010009032 ArsC family; Region: ArsC; pfam03960 279010009033 putative ArsC-like catalytic residues; other site 279010009034 putative TRX-like catalytic residues [active] 279010009035 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279010009036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010009037 active site 279010009038 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 279010009039 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 279010009040 dimer interface [polypeptide binding]; other site 279010009041 active site 279010009042 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 279010009043 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; cl12011 279010009044 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279010009045 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279010009046 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 279010009047 substrate binding site [chemical binding]; other site 279010009048 oxyanion hole (OAH) forming residues; other site 279010009049 trimer interface [polypeptide binding]; other site 279010009050 Coat F domain; Region: Coat_F; cl02368 279010009051 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 279010009052 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 279010009053 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 279010009054 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 279010009055 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 279010009056 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 279010009057 Walker A/P-loop; other site 279010009058 ATP binding site [chemical binding]; other site 279010009059 Q-loop/lid; other site 279010009060 ABC transporter signature motif; other site 279010009061 Walker B; other site 279010009062 D-loop; other site 279010009063 H-loop/switch region; other site 279010009064 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 279010009065 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 279010009066 ABC-ATPase subunit interface; other site 279010009067 dimer interface [polypeptide binding]; other site 279010009068 putative PBP binding regions; other site 279010009069 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 279010009070 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 279010009071 ABC-ATPase subunit interface; other site 279010009072 dimer interface [polypeptide binding]; other site 279010009073 putative PBP binding regions; other site 279010009074 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 279010009075 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 279010009076 siderophore binding site; other site 279010009077 Ubiquitin-like proteins; Region: UBQ; cl00155 279010009078 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 279010009079 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 279010009080 active site 279010009081 Zn binding site [ion binding]; other site 279010009082 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 279010009083 short chain dehydrogenase; Provisional; Region: PRK05650 279010009084 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 279010009085 NADP binding site [chemical binding]; other site 279010009086 active site 279010009087 steroid binding site; other site 279010009088 Ferritin-like domain; Region: Ferritin; pfam00210 279010009089 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 279010009090 dimerization interface [polypeptide binding]; other site 279010009091 DPS ferroxidase diiron center [ion binding]; other site 279010009092 ion pore; other site 279010009093 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 279010009094 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 279010009095 protein binding site [polypeptide binding]; other site 279010009096 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010009097 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 279010009098 active site 279010009099 phosphorylation site [posttranslational modification] 279010009100 intermolecular recognition site; other site 279010009101 dimerization interface [polypeptide binding]; other site 279010009102 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 279010009103 DNA binding site [nucleotide binding] 279010009104 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 279010009105 dimerization interface [polypeptide binding]; other site 279010009106 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 279010009107 dimer interface [polypeptide binding]; other site 279010009108 phosphorylation site [posttranslational modification] 279010009109 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 279010009110 ATP binding site [chemical binding]; other site 279010009111 Mg2+ binding site [ion binding]; other site 279010009112 G-X-G motif; other site 279010009113 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279010009114 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009115 fumarate hydratase; Reviewed; Region: fumC; PRK00485 279010009116 Class II fumarases; Region: Fumarase_classII; cd01362 279010009117 active site 279010009118 tetramer interface [polypeptide binding]; other site 279010009119 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 279010009120 Amino acid permease; Region: AA_permease; cl00524 279010009121 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 279010009122 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010009123 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 279010009124 active site 279010009125 phosphorylation site [posttranslational modification] 279010009126 intermolecular recognition site; other site 279010009127 dimerization interface [polypeptide binding]; other site 279010009128 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 279010009129 DNA binding residues [nucleotide binding] 279010009130 dimerization interface [polypeptide binding]; other site 279010009131 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 279010009132 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 279010009133 dimerization interface [polypeptide binding]; other site 279010009134 Histidine kinase; Region: HisKA_3; pfam07730 279010009135 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 279010009136 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 279010009137 Uncharacterized conserved protein [Function unknown]; Region: COG3595 279010009138 Interleukin 10; Region: IL10; cl02501 279010009139 Pectinesterase; Region: Pectinesterase; cl01911 279010009140 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 279010009141 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010009142 classical (c) SDRs; Region: SDR_c; cd05233 279010009143 NAD(P) binding site [chemical binding]; other site 279010009144 active site 279010009145 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 279010009146 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 279010009147 inhibitor site; inhibition site 279010009148 active site 279010009149 dimer interface [polypeptide binding]; other site 279010009150 catalytic residue [active] 279010009151 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 279010009152 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 279010009153 Walker A/P-loop; other site 279010009154 ATP binding site [chemical binding]; other site 279010009155 Q-loop/lid; other site 279010009156 ABC transporter signature motif; other site 279010009157 Walker B; other site 279010009158 D-loop; other site 279010009159 H-loop/switch region; other site 279010009160 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 279010009161 ABC-ATPase subunit interface; other site 279010009162 dimer interface [polypeptide binding]; other site 279010009163 putative PBP binding regions; other site 279010009164 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 279010009165 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 279010009166 putative binding site residues; other site 279010009167 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010009168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010009169 DNA-binding site [nucleotide binding]; DNA binding site 279010009170 FCD domain; Region: FCD; cl11656 279010009171 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010009172 classical (c) SDRs; Region: SDR_c; cd05233 279010009173 NAD(P) binding site [chemical binding]; other site 279010009174 active site 279010009175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 279010009176 MOSC domain; Region: MOSC; pfam03473 279010009177 3-alpha domain; Region: 3-alpha; pfam03475 279010009178 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 279010009179 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009180 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 279010009181 dimerization interface [polypeptide binding]; other site 279010009182 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 279010009183 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 279010009184 SAF domain; Region: SAF; cl00555 279010009185 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 279010009186 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 279010009187 altronate oxidoreductase; Provisional; Region: PRK03643 279010009188 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 279010009189 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 279010009190 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010009191 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010009192 DNA binding site [nucleotide binding] 279010009193 domain linker motif; other site 279010009194 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 279010009195 dimerization interface [polypeptide binding]; other site 279010009196 ligand binding site [chemical binding]; other site 279010009197 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 279010009198 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 279010009199 Glucuronate isomerase; Region: UxaC; cl00829 279010009200 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 279010009201 dimer interface [polypeptide binding]; other site 279010009202 phosphorylation site [posttranslational modification] 279010009203 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 279010009204 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 279010009205 ATP binding site [chemical binding]; other site 279010009206 Mg2+ binding site [ion binding]; other site 279010009207 G-X-G motif; other site 279010009208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010009209 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 279010009210 active site 279010009211 phosphorylation site [posttranslational modification] 279010009212 intermolecular recognition site; other site 279010009213 dimerization interface [polypeptide binding]; other site 279010009214 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 279010009215 DNA binding site [nucleotide binding] 279010009216 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 279010009217 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 279010009218 Walker A/P-loop; other site 279010009219 ATP binding site [chemical binding]; other site 279010009220 Q-loop/lid; other site 279010009221 ABC transporter signature motif; other site 279010009222 Walker B; other site 279010009223 D-loop; other site 279010009224 H-loop/switch region; other site 279010009225 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 279010009226 ABC-ATPase subunit interface; other site 279010009227 dimer interface [polypeptide binding]; other site 279010009228 putative PBP binding regions; other site 279010009229 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 279010009230 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 279010009231 ABC-ATPase subunit interface; other site 279010009232 dimer interface [polypeptide binding]; other site 279010009233 putative PBP binding regions; other site 279010009234 Amino acid permease; Region: AA_permease; cl00524 279010009235 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 279010009236 Small spore protein J (Spore_SspJ); Region: Spore_SspJ; cl09798 279010009237 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 279010009238 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 279010009239 Sulfatase; Region: Sulfatase; cl10460 279010009240 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 279010009241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010009242 putative substrate translocation pore; other site 279010009243 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 279010009244 putative substrate translocation pore; other site 279010009245 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 279010009246 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 279010009247 active site 279010009248 catalytic tetrad [active] 279010009249 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 279010009250 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 279010009251 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 279010009252 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 279010009253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279010009254 catalytic residue [active] 279010009255 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 279010009256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009257 Predicted membrane protein [Function unknown]; Region: COG2860 279010009258 UPF0126 domain; Region: UPF0126; pfam03458 279010009259 UPF0126 domain; Region: UPF0126; pfam03458 279010009260 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 279010009261 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279010009262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010009263 Coenzyme A binding pocket [chemical binding]; other site 279010009264 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 279010009265 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 279010009266 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 279010009267 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 279010009268 metal-binding site [ion binding] 279010009269 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279010009270 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010009271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010009272 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 279010009273 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 279010009274 dimer interface [polypeptide binding]; other site 279010009275 conserved gate region; other site 279010009276 putative PBP binding loops; other site 279010009277 ABC-ATPase subunit interface; other site 279010009278 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010009279 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 279010009280 dimer interface [polypeptide binding]; other site 279010009281 conserved gate region; other site 279010009282 putative PBP binding loops; other site 279010009283 ABC-ATPase subunit interface; other site 279010009284 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 279010009285 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 279010009286 active site 279010009287 homotrimer interface [polypeptide binding]; other site 279010009288 catalytic site [active] 279010009289 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 279010009290 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 279010009291 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 279010009292 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 279010009293 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cd00257 279010009294 PKC phosphorylation site [posttranslational modification]; other site 279010009295 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 279010009296 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 279010009297 metal binding site [ion binding]; metal-binding site 279010009298 ligand binding site [chemical binding]; other site 279010009299 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 279010009300 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 279010009301 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 279010009302 dimer interface [polypeptide binding]; other site 279010009303 ABC-ATPase subunit interface; other site 279010009304 putative PBP binding regions; other site 279010009305 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 279010009306 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 279010009307 metal binding site [ion binding]; metal-binding site 279010009308 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 279010009309 dimerization interface [polypeptide binding]; other site 279010009310 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 279010009311 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 279010009312 putative active site [active] 279010009313 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 279010009314 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 279010009315 putative substrate binding site [chemical binding]; other site 279010009316 putative ATP binding site [chemical binding]; other site 279010009317 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 279010009318 hypothetical protein; Provisional; Region: PRK08185 279010009319 intersubunit interface [polypeptide binding]; other site 279010009320 active site 279010009321 zinc binding site [ion binding]; other site 279010009322 Na+ binding site [ion binding]; other site 279010009323 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 279010009324 metal-binding site [ion binding] 279010009325 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 279010009326 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 279010009327 metal-binding site [ion binding] 279010009328 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279010009329 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010009330 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 279010009331 metal-binding site [ion binding] 279010009332 Bacillus subtilis copper-sensitive operon repressor (BsCsoR), and related domains; this family was previously known as part of DUF156; Region: BsCsoR-like_DUF156; cd10157 279010009333 putative homotetramer interface [polypeptide binding]; other site 279010009334 putative homodimer interface [polypeptide binding]; other site 279010009335 allosteric switch controlling residues; other site 279010009336 putative metal binding site [ion binding]; other site 279010009337 putative homodimer-homodimer interface [polypeptide binding]; other site 279010009338 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 279010009339 conserved cys residue [active] 279010009340 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279010009341 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009342 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 279010009343 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 279010009344 N- and C-terminal domain interface [polypeptide binding]; other site 279010009345 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 279010009346 active site 279010009347 catalytic site [active] 279010009348 metal binding site [ion binding]; metal-binding site 279010009349 ATP binding site [chemical binding]; other site 279010009350 carbohydrate binding site [chemical binding]; other site 279010009351 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 279010009352 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 279010009353 Anabaena sensory rhodopsin transducer; Region: ASRT; cl01751 279010009354 short chain dehydrogenase; Validated; Region: PRK08324 279010009355 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 279010009356 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 279010009357 putative NAD(P) binding site [chemical binding]; other site 279010009358 active site 279010009359 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 279010009360 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 279010009361 putative substrate translocation pore; other site 279010009362 similar to hypothetical protein 279010009363 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 279010009364 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 279010009365 putative substrate translocation pore; other site 279010009366 Cytochrome P450; Region: p450; cl12078 279010009367 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 279010009368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009369 putative oxidoreductase; Provisional; Region: PRK11579 279010009370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009371 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010009372 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010009373 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 279010009374 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 279010009375 active site residue [active] 279010009376 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 279010009377 hypothetical protein; Provisional; Region: PRK14082 279010009378 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 279010009379 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 279010009380 DNA binding residues [nucleotide binding] 279010009381 YvrJ protein family; Region: YvrJ; pfam12841 279010009382 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 279010009383 Cupin domain; Region: Cupin_2; cl09118 279010009384 Cupin domain; Region: Cupin_2; cl09118 279010009385 NZP3 prophage (phi-105 like) 279010009386 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009387 putative transposase OrfB; Reviewed; Region: PHA02517 279010009388 Integrase core domain; Region: rve; cl01316 279010009389 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009391 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279010009392 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010009393 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 279010009394 amidase catalytic site [active] 279010009395 Zn binding residues [ion binding]; other site 279010009396 substrate binding site [chemical binding]; other site 279010009397 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010009398 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010009399 Phage lysis protein, holin; Region: Phage_holin; cl04675 279010009400 Haemolysin XhlA; Region: XhlA; pfam10779 279010009401 Phage uncharacterised protein (Phage_XkdX); Region: Phage_XkdX; cl09900 279010009402 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 279010009403 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 279010009404 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 279010009405 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 279010009406 Phage tail protein; Region: Sipho_tail; cl11462 279010009407 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 279010009408 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 279010009409 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279010009410 catalytic residue [active] 279010009411 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 279010009412 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 279010009413 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 279010009414 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 279010009415 oligomerization interface [polypeptide binding]; other site 279010009416 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 279010009417 Phage capsid family; Region: Phage_capsid; pfam05065 279010009418 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 279010009419 oligomer interface [polypeptide binding]; other site 279010009420 active site residues [active] 279010009421 Phage portal protein; Region: Phage_portal; pfam04860 279010009422 Phage-related protein [Function unknown]; Region: COG4695; cl01923 279010009423 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 279010009424 Phage Terminase; Region: Terminase_1; pfam03354 279010009425 Phage terminase, small subunit; Region: Terminase_4; cl01525 279010009426 similar to hypothetical protein; BLi03620 279010009427 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; cl00083 279010009428 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 279010009429 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 279010009430 ERCC4 domain; Region: ERCC4; cl10594 279010009431 Uncharacterized conserved protein [Function unknown]; Region: COG4983 279010009432 hypothetical protein; Provisional; Region: PRK14709 279010009433 D5 N terminal like; Region: D5_N; cl07360 279010009434 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 279010009435 Protein of unknown function (DUF669); Region: DUF669; pfam05037 279010009436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009437 Walker A/P-loop; other site 279010009438 ATP binding site [chemical binding]; other site 279010009439 Q-loop/lid; other site 279010009440 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 279010009441 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 279010009442 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 279010009443 ORF6N domain; Region: ORF6N; pfam10543 279010009444 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 279010009445 non-specific DNA binding site [nucleotide binding]; other site 279010009446 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 279010009447 salt bridge; other site 279010009448 sequence-specific DNA binding site [nucleotide binding]; other site 279010009449 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 279010009450 Catalytic site [active] 279010009451 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 279010009452 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 279010009453 Phage integrase family; Region: Phage_integrase; pfam00589 279010009454 Int/Topo IB signature motif; other site 279010009455 NZP3 direct repeat 279010009456 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 279010009457 SmpB-tmRNA interface; other site 279010009458 ribonuclease R; Region: RNase_R; TIGR02063 279010009459 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 279010009460 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 279010009461 RNB domain; Region: RNB; pfam00773 279010009462 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 279010009463 RNA binding site [nucleotide binding]; other site 279010009464 Esterase/lipase [General function prediction only]; Region: COG1647 279010009465 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 279010009466 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 279010009467 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 279010009468 salt bridge; other site 279010009469 non-specific DNA binding site [nucleotide binding]; other site 279010009470 sequence-specific DNA binding site [nucleotide binding]; other site 279010009471 transcriptional repressor DicA; Reviewed; Region: PRK09706 279010009472 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 279010009473 non-specific DNA binding site [nucleotide binding]; other site 279010009474 salt bridge; other site 279010009475 sequence-specific DNA binding site [nucleotide binding]; other site 279010009476 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 279010009477 non-specific DNA binding site [nucleotide binding]; other site 279010009478 salt bridge; other site 279010009479 sequence-specific DNA binding site [nucleotide binding]; other site 279010009480 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 279010009481 dimer interface [polypeptide binding]; other site 279010009482 conserved gate region; other site 279010009483 putative PBP binding loops; other site 279010009484 ABC-ATPase subunit interface; other site 279010009485 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 279010009486 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 279010009487 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 279010009488 dimer interface [polypeptide binding]; other site 279010009489 conserved gate region; other site 279010009490 ABC-ATPase subunit interface; other site 279010009491 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 279010009492 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 279010009493 Walker A/P-loop; other site 279010009494 ATP binding site [chemical binding]; other site 279010009495 Q-loop/lid; other site 279010009496 ABC transporter signature motif; other site 279010009497 Walker B; other site 279010009498 D-loop; other site 279010009499 H-loop/switch region; other site 279010009500 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 279010009501 Predicted transcriptional regulators [Transcription]; Region: COG1510 279010009502 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009503 MarC family integral membrane protein; Region: MarC; cl00919 279010009504 Double zinc ribbon; Region: DZR; pfam12773 279010009505 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 279010009506 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 279010009507 siderophore binding site; other site 279010009508 enolase; Provisional; Region: eno; PRK00077 279010009509 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 279010009510 dimer interface [polypeptide binding]; other site 279010009511 metal binding site [ion binding]; metal-binding site 279010009512 substrate binding pocket [chemical binding]; other site 279010009513 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 279010009514 Sulfatase; Region: Sulfatase; cl10460 279010009515 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 279010009516 substrate binding site [chemical binding]; other site 279010009517 dimer interface [polypeptide binding]; other site 279010009518 catalytic triad [active] 279010009519 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 279010009520 substrate binding site [chemical binding]; other site 279010009521 hinge regions; other site 279010009522 ADP binding site [chemical binding]; other site 279010009523 catalytic site [active] 279010009524 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 279010009525 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 279010009526 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 279010009527 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 279010009528 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 279010009529 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279010009530 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279010009531 Amino acid permease; Region: AA_permease; cl00524 279010009532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010009533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009534 Walker A/P-loop; other site 279010009535 ATP binding site [chemical binding]; other site 279010009536 Q-loop/lid; other site 279010009537 ABC transporter signature motif; other site 279010009538 Walker B; other site 279010009539 D-loop; other site 279010009540 H-loop/switch region; other site 279010009541 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010009542 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 279010009543 iron-sulfur cluster-binding protein; Region: TIGR00273 279010009544 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 279010009545 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 279010009546 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 279010009547 Cysteine-rich domain; Region: CCG; pfam02754 279010009548 Cysteine-rich domain; Region: CCG; pfam02754 279010009549 Transcriptional regulators [Transcription]; Region: FadR; COG2186 279010009550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010009551 DNA-binding site [nucleotide binding]; DNA binding site 279010009552 FCD domain; Region: FCD; cl11656 279010009553 glycolate transporter; Provisional; Region: PRK09695 279010009554 L-lactate permease; Region: Lactate_perm; cl00701 279010009555 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 279010009556 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 279010009557 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 279010009558 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 279010009559 YvfG protein; Region: YvfG; pfam09628 279010009560 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 279010009561 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 279010009562 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 279010009563 inhibitor-cofactor binding pocket; inhibition site 279010009564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010009565 catalytic residue [active] 279010009566 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 279010009567 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 279010009568 putative trimer interface [polypeptide binding]; other site 279010009569 putative CoA binding site [chemical binding]; other site 279010009570 Bacterial sugar transferase; Region: Bac_transf; cl00939 279010009571 MatE; Region: MatE; cl10513 279010009572 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 279010009573 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 279010009574 active site 279010009575 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 279010009576 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 279010009577 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 279010009578 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 279010009579 active site 279010009580 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010009581 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 279010009582 putative ADP-binding pocket [chemical binding]; other site 279010009583 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 279010009584 active site 279010009585 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 279010009586 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010009587 putative ADP-binding pocket [chemical binding]; other site 279010009588 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 279010009589 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 279010009590 NAD(P) binding site [chemical binding]; other site 279010009591 homodimer interface [polypeptide binding]; other site 279010009592 substrate binding site [chemical binding]; other site 279010009593 active site 279010009594 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 279010009595 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009596 Chain length determinant protein; Region: Wzz; cl01623 279010009597 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279010009598 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 279010009599 non-specific DNA binding site [nucleotide binding]; other site 279010009600 salt bridge; other site 279010009601 sequence-specific DNA binding site [nucleotide binding]; other site 279010009602 Anti-repressor SinI; Region: SinI; pfam08671 279010009603 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 279010009604 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 279010009605 D-galactonate transporter; Region: 2A0114; TIGR00893 279010009606 putative substrate translocation pore; other site 279010009607 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 279010009608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009609 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 279010009610 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 279010009611 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 279010009612 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 279010009613 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 279010009614 putative active site [active] 279010009615 metal binding site [ion binding]; metal-binding site 279010009616 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 279010009617 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 279010009618 inhibitor site; inhibition site 279010009619 active site 279010009620 dimer interface [polypeptide binding]; other site 279010009621 catalytic residue [active] 279010009622 Propionate catabolism activator; Region: PrpR_N; pfam06506 279010009623 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 279010009624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009625 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009626 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009627 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 279010009628 putative active site [active] 279010009629 putative FMN binding site [chemical binding]; other site 279010009630 putative substrate binding site [chemical binding]; other site 279010009631 putative catalytic residue [active] 279010009632 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 279010009633 active site 279010009634 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 279010009635 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 279010009636 substrate binding [chemical binding]; other site 279010009637 active site 279010009638 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 279010009639 TM2 domain; Region: TM2; cl00984 279010009640 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 279010009641 oligomer interface [polypeptide binding]; other site 279010009642 active site residues [active] 279010009643 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 279010009644 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 279010009645 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 279010009646 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010009647 putative transporter; Provisional; Region: PRK11660 279010009648 Permease family; Region: Xan_ur_permease; cl00967 279010009649 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 279010009650 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 279010009651 active site clefts [active] 279010009652 zinc binding site [ion binding]; other site 279010009653 dimer interface [polypeptide binding]; other site 279010009654 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 279010009655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009656 Flavin Reductases; Region: FlaRed; cl00801 279010009657 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 279010009658 dimerization interface [polypeptide binding]; other site 279010009659 putative DNA binding site [nucleotide binding]; other site 279010009660 putative Zn2+ binding site [ion binding]; other site 279010009661 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a...; Region: barnase; cd00933 279010009662 active site 279010009663 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 279010009664 RNAase interaction site [polypeptide binding]; other site 279010009665 N-acetyltransferase; Region: Acetyltransf_2; cl00949 279010009666 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 279010009667 dimerization domain swap beta strand [polypeptide binding]; other site 279010009668 regulatory protein interface [polypeptide binding]; other site 279010009669 active site 279010009670 regulatory phosphorylation site [posttranslational modification]; other site 279010009671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 279010009672 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 279010009673 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 279010009674 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 279010009675 phosphate binding site [ion binding]; other site 279010009676 putative substrate binding pocket [chemical binding]; other site 279010009677 dimer interface [polypeptide binding]; other site 279010009678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009679 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 279010009680 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 279010009681 putative active site [active] 279010009682 nucleotide binding site [chemical binding]; other site 279010009683 nudix motif; other site 279010009684 putative metal binding site [ion binding]; other site 279010009685 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 279010009686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009688 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 279010009689 binding surface 279010009690 TPR motif; other site 279010009691 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010009692 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 279010009693 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 279010009694 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 279010009695 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 279010009696 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 279010009697 substrate binding site [chemical binding]; other site 279010009698 glutamase interaction surface [polypeptide binding]; other site 279010009699 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 279010009700 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 279010009701 catalytic residues [active] 279010009702 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 279010009703 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 279010009704 putative active site [active] 279010009705 oxyanion strand; other site 279010009706 catalytic triad [active] 279010009707 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 279010009708 putative active site pocket [active] 279010009709 4-fold oligomerization interface [polypeptide binding]; other site 279010009710 metal binding residues [ion binding]; metal-binding site 279010009711 3-fold/trimer interface [polypeptide binding]; other site 279010009712 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 279010009713 histidinol dehydrogenase; Region: hisD; TIGR00069 279010009714 NAD binding site [chemical binding]; other site 279010009715 dimerization interface [polypeptide binding]; other site 279010009716 product binding site; other site 279010009717 substrate binding site [chemical binding]; other site 279010009718 zinc binding site [ion binding]; other site 279010009719 catalytic residues [active] 279010009720 ATP phosphoribosyltransferase; Region: HisG; cl15266 279010009721 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 279010009722 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 279010009723 dimer interface [polypeptide binding]; other site 279010009724 motif 1; other site 279010009725 active site 279010009726 motif 2; other site 279010009727 motif 3; other site 279010009728 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 279010009729 putative active site [active] 279010009730 Pectate lyase; Region: Pectate_lyase; pfam03211 279010009731 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 279010009732 trimer interface [polypeptide binding]; other site 279010009733 active site 279010009734 substrate binding site [chemical binding]; other site 279010009735 CoA binding site [chemical binding]; other site 279010009736 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 279010009737 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 279010009738 active site 279010009739 motif I; other site 279010009740 motif II; other site 279010009741 Nucleoside recognition; Region: Gate; cl00486 279010009742 Nucleoside recognition; Region: Gate; cl00486 279010009743 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 279010009744 HPr kinase/phosphorylase; Provisional; Region: PRK05428 279010009745 DRTGG domain; Region: DRTGG; cl12147 279010009746 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 279010009747 Hpr binding site; other site 279010009748 active site 279010009749 homohexamer subunit interaction site [polypeptide binding]; other site 279010009750 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010009751 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 279010009752 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010009753 putative substrate translocation pore; other site 279010009754 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 279010009755 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 279010009756 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279010009757 putative active site [active] 279010009758 putative metal binding site [ion binding]; other site 279010009759 Membrane protein of unknown function; Region: DUF360; cl00850 279010009760 PspC domain; Region: PspC; cl00864 279010009761 Uncharacterized conserved protein [Function unknown]; Region: COG3595 279010009762 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 279010009763 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 279010009764 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 279010009765 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 279010009766 excinuclease ABC subunit B; Provisional; Region: PRK05298 279010009767 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 279010009768 ATP binding site [chemical binding]; other site 279010009769 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 279010009770 nucleotide binding region [chemical binding]; other site 279010009771 ATP-binding site [chemical binding]; other site 279010009772 Ultra-violet resistance protein B; Region: UvrB; pfam12344 279010009773 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 279010009774 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 279010009775 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 279010009776 C-terminal peptidase (prc); Region: prc; TIGR00225 279010009777 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 279010009778 protein binding site [polypeptide binding]; other site 279010009779 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 279010009780 Catalytic dyad [active] 279010009781 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 279010009782 tartrate dehydrogenase; Provisional; Region: PRK08194 279010009783 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 279010009784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 279010009785 Peptidase family M23; Region: Peptidase_M23; pfam01551 279010009786 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 279010009787 FtsX-like permease family; Region: FtsX; pfam02687 279010009788 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 279010009789 FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and...; Region: ABC_FtsE_transporter; cd03292 279010009790 Walker A/P-loop; other site 279010009791 ATP binding site [chemical binding]; other site 279010009792 Q-loop/lid; other site 279010009793 ABC transporter signature motif; other site 279010009794 Walker B; other site 279010009795 D-loop; other site 279010009796 H-loop/switch region; other site 279010009797 Cytochrome c; Region: Cytochrom_C; cl11414 279010009798 Uncharacterized conserved protein [Function unknown]; Region: COG1284 279010009799 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010009800 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010009801 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010009802 peptide chain release factor 2; Provisional; Region: PRK06746 279010009803 RF-1 domain; Region: RF-1; cl02875 279010009804 RF-1 domain; Region: RF-1; cl02875 279010009805 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 279010009806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010009807 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 279010009808 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 279010009809 nucleotide binding region [chemical binding]; other site 279010009810 ATP-binding site [chemical binding]; other site 279010009811 SEC-C motif; Region: SEC-C; pfam02810 279010009812 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 279010009813 30S subunit binding site; other site 279010009814 Flagellar protein FliT; Region: FliT; cl05125 279010009815 Flagellar protein FliS; Region: FliS; cl00654 279010009816 flagellar capping protein; Validated; Region: fliD; PRK07737 279010009817 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 279010009818 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 279010009819 FlaG protein; Region: FlaG; cl00591 279010009820 flagellin; Provisional; Region: PRK12804 279010009821 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 279010009822 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 279010009823 Global regulator protein family; Region: CsrA; cl00670 279010009824 FliW protein; Region: FliW; cl00740 279010009825 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 279010009826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 279010009827 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 279010009828 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 279010009829 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010009830 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 279010009831 FlgN protein; Region: FlgN; cl09176 279010009832 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 279010009833 flagellar operon protein TIGR03826; Region: YvyF 279010009834 comF family protein; Region: comF; TIGR00201 279010009835 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010009836 Late competence development protein ComFB; Region: ComFB; pfam10719 279010009837 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 279010009838 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 279010009839 ATP binding site [chemical binding]; other site 279010009840 putative Mg++ binding site [ion binding]; other site 279010009841 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 279010009842 nucleotide binding region [chemical binding]; other site 279010009843 ATP-binding site [chemical binding]; other site 279010009844 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 279010009845 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010009846 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 279010009847 active site 279010009848 phosphorylation site [posttranslational modification] 279010009849 intermolecular recognition site; other site 279010009850 dimerization interface [polypeptide binding]; other site 279010009851 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 279010009852 DNA binding residues [nucleotide binding] 279010009853 dimerization interface [polypeptide binding]; other site 279010009854 Sensor protein DegS; Region: DegS; pfam05384 279010009855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279010009856 Histidine kinase; Region: HisKA_3; pfam07730 279010009857 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 279010009858 ATP binding site [chemical binding]; other site 279010009859 Mg2+ binding site [ion binding]; other site 279010009860 G-X-G motif; other site 279010009861 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 279010009862 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 279010009863 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 279010009864 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 279010009865 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 279010009866 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 279010009867 Mg++ binding site [ion binding]; other site 279010009868 putative catalytic motif [active] 279010009869 substrate binding site [chemical binding]; other site 279010009870 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: GT1_like_1; cd04950 279010009871 putative homodimer interface [polypeptide binding]; other site 279010009872 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 279010009873 active site 279010009874 O-Antigen ligase; Region: Wzy_C; cl04850 279010009875 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279010009876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009877 NAD(P) binding site [chemical binding]; other site 279010009878 active site 279010009879 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 279010009880 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279010009881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010009882 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279010009883 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 279010009884 colanic acid exporter; Provisional; Region: PRK10459 279010009885 MatE; Region: MatE; cl10513 279010009886 Bacterial sugar transferase; Region: Bac_transf; cl00939 279010009887 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009888 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 279010009889 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009890 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009891 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 279010009892 active site 279010009893 metal binding site [ion binding]; metal-binding site 279010009894 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009895 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 279010009896 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009897 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 279010009898 Stage II sporulation protein; Region: SpoIID; pfam08486 279010009899 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 279010009900 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 279010009901 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 279010009902 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 279010009903 active site 279010009904 homodimer interface [polypeptide binding]; other site 279010009905 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 279010009906 active site 279010009907 tetramer interface; other site 279010009908 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 279010009909 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 279010009910 Walker A/P-loop; other site 279010009911 ATP binding site [chemical binding]; other site 279010009912 Q-loop/lid; other site 279010009913 ABC transporter signature motif; other site 279010009914 Walker B; other site 279010009915 D-loop; other site 279010009916 H-loop/switch region; other site 279010009917 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010009918 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 279010009919 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 279010009920 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 279010009921 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 279010009922 putative ADP-binding pocket [chemical binding]; other site 279010009923 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 279010009924 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 279010009925 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 279010009926 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 279010009927 active site 279010009928 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 279010009929 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 279010009930 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 279010009931 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 279010009932 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 279010009933 Bacterial SH3 domain; Region: SH3_3; cl02551 279010009934 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 279010009935 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 279010009936 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 279010009937 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 279010009938 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; cl15367 279010009939 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 279010009940 Class III ribonucleotide reductase; Region: RNR_III; cd01675 279010009941 effector binding site; other site 279010009942 active site 279010009943 Zn binding site [ion binding]; other site 279010009944 glycine loop; other site 279010009945 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 279010009946 KDPG and KHG aldolase; Region: Aldolase; pfam01081 279010009947 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 279010009948 active site 279010009949 intersubunit interface [polypeptide binding]; other site 279010009950 catalytic residue [active] 279010009951 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279010009952 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 279010009953 substrate binding site [chemical binding]; other site 279010009954 ATP binding site [chemical binding]; other site 279010009955 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010009956 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010009957 DNA binding site [nucleotide binding] 279010009958 domain linker motif; other site 279010009959 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 279010009960 putative dimerization interface [polypeptide binding]; other site 279010009961 putative ligand binding site [chemical binding]; other site 279010009962 KduI/IolB family; Region: KduI; cl01508 279010009963 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 279010009964 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 279010009965 NADP binding site [chemical binding]; other site 279010009966 homodimer interface [polypeptide binding]; other site 279010009967 active site 279010009968 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 279010009969 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279010009970 NAD binding site [chemical binding]; other site 279010009971 catalytic Zn binding site [ion binding]; other site 279010009972 structural Zn binding site [ion binding]; other site 279010009973 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 279010009974 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 279010009975 putative substrate translocation pore; other site 279010009976 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 279010009977 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 279010009978 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010009979 active site 279010009980 motif I; other site 279010009981 motif II; other site 279010009982 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010009983 NlpC/P60 family; Region: NLPC_P60; cl11438 279010009984 NlpC/P60 family; Region: NLPC_P60; cl11438 279010009985 NlpC/P60 family; Region: NLPC_P60; cl11438 279010009986 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 279010009987 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 279010009988 putative active site [active] 279010009989 putative metal binding site [ion binding]; other site 279010009990 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 279010009991 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 279010009992 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279010009993 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010009994 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010009995 DNA binding site [nucleotide binding] 279010009996 domain linker motif; other site 279010009997 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 279010009998 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279010009999 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 279010010000 substrate binding site [chemical binding]; other site 279010010001 dimer interface [polypeptide binding]; other site 279010010002 ATP binding site [chemical binding]; other site 279010010003 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 279010010004 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 279010010005 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 279010010006 Walker A/P-loop; other site 279010010007 ATP binding site [chemical binding]; other site 279010010008 Q-loop/lid; other site 279010010009 ABC transporter signature motif; other site 279010010010 Walker B; other site 279010010011 D-loop; other site 279010010012 H-loop/switch region; other site 279010010013 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 279010010014 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 279010010015 TM-ABC transporter signature motif; other site 279010010016 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 279010010017 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 279010010018 ligand binding site [chemical binding]; other site 279010010019 dimerization interface [polypeptide binding]; other site 279010010020 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 279010010021 acetolactate synthase; Reviewed; Region: PRK08617 279010010022 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279010010023 PYR/PP interface [polypeptide binding]; other site 279010010024 dimer interface [polypeptide binding]; other site 279010010025 TPP binding site [chemical binding]; other site 279010010026 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 279010010027 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 279010010028 TPP-binding site [chemical binding]; other site 279010010029 dimer interface [polypeptide binding]; other site 279010010030 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 279010010031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010032 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 279010010033 dimerization interface [polypeptide binding]; other site 279010010034 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 279010010035 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 279010010036 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279010010037 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010038 Chromate transporter; Region: Chromate_transp; pfam02417 279010010039 Chromate transporter; Region: Chromate_transp; pfam02417 279010010040 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 279010010041 Chain length determinant protein; Region: Wzz; cl01623 279010010042 SNF2 Helicase protein; Region: DUF3670; pfam12419 279010010043 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 279010010044 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 279010010045 ATP binding site [chemical binding]; other site 279010010046 putative Mg++ binding site [ion binding]; other site 279010010047 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 279010010048 nucleotide binding region [chemical binding]; other site 279010010049 ATP-binding site [chemical binding]; other site 279010010050 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 279010010051 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 279010010052 active site 279010010053 motif I; other site 279010010054 motif II; other site 279010010055 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010010056 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279010010057 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010058 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 279010010059 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 279010010060 catalytic residue [active] 279010010061 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 279010010062 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 279010010063 putative NAD(P) binding site [chemical binding]; other site 279010010064 active site 279010010065 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 279010010066 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 279010010067 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 279010010068 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 279010010069 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 279010010070 Glucitol operon activator protein (GutM); Region: GutM; cl01890 279010010071 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 279010010072 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010073 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 279010010074 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 279010010075 dimer interface [polypeptide binding]; other site 279010010076 ssDNA binding site [nucleotide binding]; other site 279010010077 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010010078 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 279010010079 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 279010010080 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 279010010081 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010010082 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 279010010083 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 279010010084 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 279010010085 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 279010010086 rod shape-determining protein Mbl; Provisional; Region: PRK13928 279010010087 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 279010010088 ATP binding site [chemical binding]; other site 279010010089 profilin binding site; other site 279010010090 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010091 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010092 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010010093 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 279010010094 putative substrate translocation pore; other site 279010010095 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 279010010096 active site 279010010097 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 279010010098 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 279010010099 DHHA2 domain; Region: DHHA2; pfam02833 279010010100 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 279010010101 dimanganese center [ion binding]; other site 279010010102 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 279010010103 FOG: CBS domain [General function prediction only]; Region: COG0517 279010010104 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 279010010105 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 279010010106 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279010010107 Domain of unknown function DUF21; Region: DUF21; pfam01595 279010010108 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 279010010109 Transporter associated domain; Region: CorC_HlyC; cl08393 279010010110 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 279010010111 Nitrogen regulatory protein P-II; Region: P-II; cl00412 279010010112 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 279010010113 oligomer interface [polypeptide binding]; other site 279010010114 active site residues [active] 279010010115 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 279010010116 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010010117 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; cl15358 279010010118 Peptidase family M23; Region: Peptidase_M23; pfam01551 279010010119 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010010120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010010121 Coenzyme A binding pocket [chemical binding]; other site 279010010122 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 279010010123 Protein of unknown function (DUF805); Region: DUF805; cl01224 279010010124 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 279010010125 putative active site [active] 279010010126 catalytic site [active] 279010010127 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 279010010128 putative active site [active] 279010010129 catalytic site [active] 279010010130 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279010010131 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 279010010132 putative substrate translocation pore; other site 279010010133 MbtH-like protein; Region: MbtH; cl01279 279010010134 peptide synthase; Provisional; Region: PRK12467 279010010135 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010136 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010137 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010010138 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 279010010139 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010140 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010141 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010010142 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 279010010143 hydrophobic substrate binding pocket; other site 279010010144 Isochorismatase family; Region: Isochorismatase; pfam00857 279010010145 active site 279010010146 conserved cis-peptide bond; other site 279010010147 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010010148 2,3-dihydroxybenzoate-AMP ligase; Region: DHB_AMP_lig; TIGR02275 279010010149 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010150 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010151 isochorismate synthase DhbC; Validated; Region: PRK06923 279010010152 chorismate binding enzyme; Region: Chorismate_bind; cl10555 279010010153 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279010010154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010010155 NAD(P) binding site [chemical binding]; other site 279010010156 active site 279010010157 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 279010010158 Putative esterase; Region: Esterase; pfam00756 279010010159 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 279010010160 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 279010010161 dimer interface [polypeptide binding]; other site 279010010162 putative PBP binding regions; other site 279010010163 ABC-ATPase subunit interface; other site 279010010164 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 279010010165 ABC-ATPase subunit interface; other site 279010010166 dimer interface [polypeptide binding]; other site 279010010167 putative PBP binding regions; other site 279010010168 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 279010010169 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 279010010170 intersubunit interface [polypeptide binding]; other site 279010010171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010010172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279010010173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279010010174 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 279010010175 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 279010010176 intersubunit interface [polypeptide binding]; other site 279010010177 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010178 putative transposase OrfB; Reviewed; Region: PHA02517 279010010179 Integrase core domain; Region: rve; cl01316 279010010180 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010181 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 279010010182 NAD binding site [chemical binding]; other site 279010010183 substrate binding site [chemical binding]; other site 279010010184 putative active site [active] 279010010185 Predicted transcriptional regulator [Transcription]; Region: COG1959 279010010186 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010187 GRAM domain; Region: GRAM; cl02671 279010010188 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 279010010189 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 279010010190 FeS/SAM binding site; other site 279010010191 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 279010010192 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 279010010193 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 279010010194 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 279010010195 putative substrate translocation pore; other site 279010010196 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 279010010197 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 279010010198 putative molybdopterin cofactor binding site [chemical binding]; other site 279010010199 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 279010010200 molybdopterin cofactor binding site; other site 279010010201 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 279010010202 metal ion-dependent adhesion site (MIDAS); other site 279010010203 VWA ywmD type: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...; Region: vWA_ywmD_type; cd01456 279010010204 metal ion-dependent adhesion site (MIDAS); other site 279010010205 stage II sporulation protein D; Region: spore_II_D; TIGR02870 279010010206 Stage II sporulation protein; Region: SpoIID; pfam08486 279010010207 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 279010010208 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 279010010209 hinge; other site 279010010210 active site 279010010211 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 279010010212 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 279010010213 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 279010010214 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 279010010215 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 279010010216 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 279010010217 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 279010010218 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 279010010219 alpha subunit interaction interface [polypeptide binding]; other site 279010010220 Walker A motif; other site 279010010221 ATP binding site [chemical binding]; other site 279010010222 Walker B motif; other site 279010010223 inhibitor binding site; inhibition site 279010010224 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 279010010225 ATP synthase; Region: ATP-synt; cl00365 279010010226 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 279010010227 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 279010010228 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 279010010229 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 279010010230 beta subunit interaction interface [polypeptide binding]; other site 279010010231 Walker A motif; other site 279010010232 ATP binding site [chemical binding]; other site 279010010233 Walker B motif; other site 279010010234 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 279010010235 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 279010010236 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 279010010237 Plant ATP synthase F0; Region: YMF19; cl07975 279010010238 ATP synthase subunit C; Region: ATP-synt_C; cl00466 279010010239 ATP synthase A chain; Region: ATP-synt_A; cl00413 279010010240 ATP synthase I chain; Region: ATP_synt_I; cl09170 279010010241 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 279010010242 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 279010010243 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 279010010244 dimer interface [polypeptide binding]; other site 279010010245 glycine-pyridoxal phosphate binding site [chemical binding]; other site 279010010246 active site 279010010247 folate binding site [chemical binding]; other site 279010010248 Protein of unknown function (DUF436); Region: DUF436; cl01860 279010010249 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 279010010250 Low molecular weight phosphatase family; Region: LMWPc; cd00115 279010010251 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 279010010252 active site 279010010253 Predicted membrane protein [Function unknown]; Region: COG1971 279010010254 Domain of unknown function DUF; Region: DUF204; pfam02659 279010010255 Domain of unknown function DUF; Region: DUF204; pfam02659 279010010256 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 279010010257 SUA5 domain; Region: SUA5; pfam03481 279010010258 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010010259 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 279010010260 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 279010010261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010010262 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010010263 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 279010010264 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 279010010265 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 279010010266 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 279010010267 inhibitor-cofactor binding pocket; inhibition site 279010010268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010010269 catalytic residue [active] 279010010270 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010010271 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010010272 DNA binding site [nucleotide binding] 279010010273 domain linker motif; other site 279010010274 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 279010010275 putative ligand binding site [chemical binding]; other site 279010010276 putative dimerization interface [polypeptide binding]; other site 279010010277 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 279010010278 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 279010010279 S-adenosylmethionine binding site [chemical binding]; other site 279010010280 peptide chain release factor 1; Validated; Region: prfA; PRK00591 279010010281 RF-1 domain; Region: RF-1; cl02875 279010010282 RF-1 domain; Region: RF-1; cl02875 279010010283 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 279010010284 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010010285 putative metal binding site [ion binding]; other site 279010010286 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 279010010287 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 279010010288 DNA binding residues [nucleotide binding] 279010010289 Membrane transport protein; Region: Mem_trans; cl09117 279010010290 malate dehydrogenase; Provisional; Region: PRK13529 279010010291 Malic enzyme, N-terminal domain; Region: malic; pfam00390 279010010292 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 279010010293 NAD(P) binding site [chemical binding]; other site 279010010294 Thymidine kinase; Region: TK; cl00631 279010010295 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 279010010296 transcription termination factor Rho; Provisional; Region: rho; PRK09376 279010010297 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 279010010298 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 279010010299 RNA binding site [nucleotide binding]; other site 279010010300 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 279010010301 multimer interface [polypeptide binding]; other site 279010010302 Walker A motif; other site 279010010303 ATP binding site [chemical binding]; other site 279010010304 Walker B motif; other site 279010010305 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 279010010306 putative active site [active] 279010010307 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 279010010308 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 279010010309 hinge; other site 279010010310 active site 279010010311 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 279010010312 active site 279010010313 intersubunit interactions; other site 279010010314 catalytic residue [active] 279010010315 hypothetical protein; Provisional; Region: PRK08185 279010010316 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 279010010317 intersubunit interface [polypeptide binding]; other site 279010010318 active site 279010010319 zinc binding site [ion binding]; other site 279010010320 Na+ binding site [ion binding]; other site 279010010321 Response regulator receiver domain; Region: Response_reg; pfam00072 279010010322 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 279010010323 active site 279010010324 phosphorylation site [posttranslational modification] 279010010325 intermolecular recognition site; other site 279010010326 dimerization interface [polypeptide binding]; other site 279010010327 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 279010010328 CTP synthetase; Validated; Region: pyrG; PRK05380 279010010329 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 279010010330 Catalytic site [active] 279010010331 active site 279010010332 UTP binding site [chemical binding]; other site 279010010333 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 279010010334 active site 279010010335 putative oxyanion hole; other site 279010010336 catalytic triad [active] 279010010337 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 279010010338 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010010339 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 279010010340 FAD binding site [chemical binding]; other site 279010010341 homotetramer interface [polypeptide binding]; other site 279010010342 substrate binding pocket [chemical binding]; other site 279010010343 catalytic base [active] 279010010344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279010010345 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 279010010346 FAD binding site [chemical binding]; other site 279010010347 homotetramer interface [polypeptide binding]; other site 279010010348 substrate binding pocket [chemical binding]; other site 279010010349 catalytic base [active] 279010010350 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 279010010351 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; cl12011 279010010352 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279010010353 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 279010010354 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 279010010355 dimer interface [polypeptide binding]; other site 279010010356 active site 279010010357 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 279010010358 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 279010010359 Cysteine-rich domain; Region: CCG; pfam02754 279010010360 Cysteine-rich domain; Region: CCG; pfam02754 279010010361 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 279010010362 putative active site [active] 279010010363 catalytic site [active] 279010010364 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 279010010365 putative active site [active] 279010010366 catalytic site [active] 279010010367 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 279010010368 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 279010010369 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 279010010370 active site 279010010371 HIGH motif; other site 279010010372 KMSK motif region; other site 279010010373 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 279010010374 tRNA binding surface [nucleotide binding]; other site 279010010375 anticodon binding site; other site 279010010376 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 279010010377 Arginase family; Region: Arginase; cl00306 279010010378 spermidine synthase; Provisional; Region: PRK00811 279010010379 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; cl12011 279010010380 Transglycosylase; Region: Transgly; cl07896 279010010381 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 279010010382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 279010010383 YwhD family; Region: YwhD; pfam08741 279010010384 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 279010010385 active site 279010010386 putative substrate binding region [chemical binding]; other site 279010010387 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 279010010388 active site 1 [active] 279010010389 dimer interface [polypeptide binding]; other site 279010010390 hexamer interface [polypeptide binding]; other site 279010010391 active site 2 [active] 279010010392 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 279010010393 active site 279010010394 Uncharacterized conserved protein [Function unknown]; Region: COG3465 279010010395 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 279010010396 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 279010010397 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 279010010398 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 279010010399 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 279010010400 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 279010010401 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 279010010402 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 279010010403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010010404 benzoate transport; Region: 2A0115; TIGR00895 279010010405 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 279010010406 putative substrate translocation pore; other site 279010010407 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 279010010408 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 279010010409 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 279010010410 active site 279010010411 metal binding site [ion binding]; metal-binding site 279010010412 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 279010010413 active site 1 [active] 279010010414 dimer interface [polypeptide binding]; other site 279010010415 hexamer interface [polypeptide binding]; other site 279010010416 active site 2 [active] 279010010417 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279010010418 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010010419 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 279010010420 NAD binding site [chemical binding]; other site 279010010421 catalytic residues [active] 279010010422 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279010010423 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010424 Bacterial transcriptional regulator; Region: IclR; pfam01614 279010010425 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 279010010426 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 279010010427 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 279010010428 Chlorite dismutase; Region: Chlor_dismutase; cl01280 279010010429 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 279010010430 Cation transport protein; Region: TrkH; cl10514 279010010431 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; cl09881 279010010432 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 279010010433 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010010434 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 279010010435 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010010436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010437 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 279010010438 Walker A/P-loop; other site 279010010439 ATP binding site [chemical binding]; other site 279010010440 Q-loop/lid; other site 279010010441 ABC transporter signature motif; other site 279010010442 Walker B; other site 279010010443 D-loop; other site 279010010444 H-loop/switch region; other site 279010010445 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 279010010446 Histidine kinase; Region: HisKA_3; pfam07730 279010010447 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 279010010448 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010010449 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 279010010450 active site 279010010451 phosphorylation site [posttranslational modification] 279010010452 intermolecular recognition site; other site 279010010453 dimerization interface [polypeptide binding]; other site 279010010454 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 279010010455 DNA binding residues [nucleotide binding] 279010010456 dimerization interface [polypeptide binding]; other site 279010010457 Protein of unknown function (DUF423); Region: DUF423; cl01008 279010010458 Permease family; Region: Xan_ur_permease; cl00967 279010010459 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 279010010460 NAD(P) binding site [chemical binding]; other site 279010010461 catalytic residues [active] 279010010462 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 279010010463 ligand binding site [chemical binding]; other site 279010010464 active site 279010010465 UGI interface [polypeptide binding]; other site 279010010466 catalytic site [active] 279010010467 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 279010010468 active site 279010010469 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 279010010470 dimer interface [polypeptide binding]; other site 279010010471 substrate binding site [chemical binding]; other site 279010010472 ATP binding site [chemical binding]; other site 279010010473 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 279010010474 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 279010010475 substrate binding [chemical binding]; other site 279010010476 active site 279010010477 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 279010010478 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 279010010479 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 279010010480 active site turn [active] 279010010481 phosphorylation site [posttranslational modification] 279010010482 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010010483 transcriptional antiterminator BglG; Provisional; Region: PRK09772 279010010484 CAT RNA binding domain; Region: CAT_RBD; cl03904 279010010485 PRD domain; Region: PRD; cl15445 279010010486 PRD domain; Region: PRD; cl15445 279010010487 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 279010010488 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 279010010489 putative active site [active] 279010010490 catalytic triad [active] 279010010491 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 279010010492 PA/protease domain interface [polypeptide binding]; other site 279010010493 putative integrin binding motif; other site 279010010494 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 279010010495 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279010010496 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279010010497 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 279010010498 dimer interface [polypeptide binding]; other site 279010010499 FMN binding site [chemical binding]; other site 279010010500 NADPH bind site [chemical binding]; other site 279010010501 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279010010502 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 279010010503 metal binding site [ion binding]; metal-binding site 279010010504 dimer interface [polypeptide binding]; other site 279010010505 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010010506 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279010010507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 279010010508 Nucleoside recognition; Region: Gate; cl00486 279010010509 Clostripain family; Region: Peptidase_C11; cl04055 279010010510 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 279010010511 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010010512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010513 Walker A/P-loop; other site 279010010514 ATP binding site [chemical binding]; other site 279010010515 Q-loop/lid; other site 279010010516 ABC transporter signature motif; other site 279010010517 Walker B; other site 279010010518 D-loop; other site 279010010519 H-loop/switch region; other site 279010010520 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010010521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010522 Walker A/P-loop; other site 279010010523 ATP binding site [chemical binding]; other site 279010010524 Q-loop/lid; other site 279010010525 ABC transporter signature motif; other site 279010010526 Walker B; other site 279010010527 D-loop; other site 279010010528 H-loop/switch region; other site 279010010529 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 279010010530 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 279010010531 Ligand Binding Site [chemical binding]; other site 279010010532 Molecular Tunnel; other site 279010010533 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010010534 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 279010010535 active site 279010010536 phosphorylation site [posttranslational modification] 279010010537 intermolecular recognition site; other site 279010010538 dimerization interface [polypeptide binding]; other site 279010010539 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 279010010540 DNA binding residues [nucleotide binding] 279010010541 dimerization interface [polypeptide binding]; other site 279010010542 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 279010010543 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 279010010544 Subunit I/III interface [polypeptide binding]; other site 279010010545 Subunit III/IV interface [polypeptide binding]; other site 279010010546 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 279010010547 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 279010010548 D-pathway; other site 279010010549 Putative ubiquinol binding site [chemical binding]; other site 279010010550 Low-spin heme (heme b) binding site [chemical binding]; other site 279010010551 Putative water exit pathway; other site 279010010552 Binuclear center (heme o3/CuB) [ion binding]; other site 279010010553 K-pathway; other site 279010010554 Putative proton exit pathway; other site 279010010555 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 279010010556 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 279010010557 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 279010010558 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279010010559 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 279010010560 NAD binding site [chemical binding]; other site 279010010561 homodimer interface [polypeptide binding]; other site 279010010562 active site 279010010563 substrate binding site [chemical binding]; other site 279010010564 Anti-repressor SinI; Region: SinI; pfam08671 279010010565 Protein of unknown function, DUF485; Region: DUF485; cl01231 279010010566 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 279010010567 Sodium:solute symporter family; Region: SSF; cl00456 279010010568 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 279010010569 N- and C-terminal domain interface [polypeptide binding]; other site 279010010570 D-xylulose kinase; Region: XylB; TIGR01312 279010010571 active site 279010010572 catalytic site [active] 279010010573 metal binding site [ion binding]; metal-binding site 279010010574 xylulose binding site [chemical binding]; other site 279010010575 putative ATP binding site [chemical binding]; other site 279010010576 homodimer interface [polypeptide binding]; other site 279010010577 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 279010010578 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 279010010579 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 279010010580 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 279010010581 thiamine phosphate binding site [chemical binding]; other site 279010010582 active site 279010010583 pyrophosphate binding site [ion binding]; other site 279010010584 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 279010010585 substrate binding site [chemical binding]; other site 279010010586 multimerization interface [polypeptide binding]; other site 279010010587 ATP binding site [chemical binding]; other site 279010010588 LrgA family; Region: LrgA; cl00608 279010010589 LrgB-like family; Region: LrgB; cl00596 279010010590 Sodium:solute symporter family; Region: SSF; cl00456 279010010591 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 279010010592 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 279010010593 PUA domain; Region: PUA; cl00607 279010010594 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; cl12011 279010010595 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010010596 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 279010010597 dimer interface [polypeptide binding]; other site 279010010598 substrate binding site [chemical binding]; other site 279010010599 metal binding site [ion binding]; metal-binding site 279010010600 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 279010010601 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 279010010602 Ligand binding site; other site 279010010603 metal-binding site 279010010604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 279010010605 Histidine kinase; Region: HisKA_3; pfam07730 279010010606 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 279010010607 ATP binding site [chemical binding]; other site 279010010608 Mg2+ binding site [ion binding]; other site 279010010609 G-X-G motif; other site 279010010610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010010611 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 279010010612 active site 279010010613 phosphorylation site [posttranslational modification] 279010010614 intermolecular recognition site; other site 279010010615 dimerization interface [polypeptide binding]; other site 279010010616 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 279010010617 DNA binding residues [nucleotide binding] 279010010618 dimerization interface [polypeptide binding]; other site 279010010619 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 279010010620 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 279010010621 Predicted integral membrane protein [Function unknown]; Region: COG5522; cl02331 279010010622 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 279010010623 D-galactonate transporter; Region: 2A0114; TIGR00893 279010010624 putative substrate translocation pore; other site 279010010625 galactonate dehydratase; Provisional; Region: PRK14017 279010010626 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 279010010627 putative active site pocket [active] 279010010628 putative metal binding site [ion binding]; other site 279010010629 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 279010010630 Entner-Doudoroff aldolase; Region: eda; TIGR01182 279010010631 active site 279010010632 intersubunit interface [polypeptide binding]; other site 279010010633 catalytic residue [active] 279010010634 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279010010635 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 279010010636 substrate binding site [chemical binding]; other site 279010010637 ATP binding site [chemical binding]; other site 279010010638 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010639 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279010010640 Bacterial transcriptional regulator; Region: IclR; pfam01614 279010010641 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279010010642 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 279010010643 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 279010010644 putative integrin binding motif; other site 279010010645 PA/protease domain interface [polypeptide binding]; other site 279010010646 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 279010010647 metal binding site [ion binding]; metal-binding site 279010010648 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 279010010649 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010010650 putative substrate translocation pore; other site 279010010651 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 279010010652 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 279010010653 synthetase active site [active] 279010010654 NTP binding site [chemical binding]; other site 279010010655 metal binding site [ion binding]; metal-binding site 279010010656 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 279010010657 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 279010010658 D-alanine--poly(phosphoribitol) ligase, subunit 1; Region: D-ala-DACP-lig; TIGR01734 279010010659 MBOAT family; Region: MBOAT; cl00738 279010010660 Phosphopantetheine attachment site; Region: PP-binding; cl09936 279010010661 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 279010010662 DltD N-terminal region; Region: DltD_N; pfam04915 279010010663 DltD central region; Region: DltD_M; pfam04918 279010010664 DltD C-terminal region; Region: DltD_C; pfam04914 279010010665 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 279010010666 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 279010010667 homodimer interface [polypeptide binding]; other site 279010010668 substrate-cofactor binding pocket; other site 279010010669 catalytic residue [active] 279010010670 H+ Antiporter protein; Region: 2A0121; TIGR00900 279010010671 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 279010010672 putative substrate translocation pore; other site 279010010673 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 279010010674 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 279010010675 NAD binding site [chemical binding]; other site 279010010676 sugar binding site [chemical binding]; other site 279010010677 divalent metal binding site [ion binding]; other site 279010010678 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010010679 dimer interface [polypeptide binding]; other site 279010010680 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 279010010681 methionine cluster; other site 279010010682 active site 279010010683 phosphorylation site [posttranslational modification] 279010010684 metal binding site [ion binding]; metal-binding site 279010010685 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010010686 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 279010010687 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 279010010688 active site 279010010689 P-loop; other site 279010010690 phosphorylation site [posttranslational modification] 279010010691 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 279010010692 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010693 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010694 PRD domain; Region: PRD; cl15445 279010010695 PRD domain; Region: PRD; cl15445 279010010696 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 279010010697 P-loop; other site 279010010698 active site 279010010699 phosphorylation site [posttranslational modification] 279010010700 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 279010010701 active site 279010010702 phosphorylation site [posttranslational modification] 279010010703 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 279010010704 active site 279010010705 DNA binding site [nucleotide binding] 279010010706 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010010707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010010708 DNA-binding site [nucleotide binding]; DNA binding site 279010010709 FCD domain; Region: FCD; cl11656 279010010710 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 279010010711 dimer interface [polypeptide binding]; other site 279010010712 Citrate synthase; Region: Citrate_synt; pfam00285 279010010713 active site 279010010714 coenzyme A binding site [chemical binding]; other site 279010010715 citrylCoA binding site [chemical binding]; other site 279010010716 oxalacetate/citrate binding site [chemical binding]; other site 279010010717 catalytic triad [active] 279010010718 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 279010010719 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 279010010720 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 279010010721 tetramer interface [polypeptide binding]; other site 279010010722 active site 279010010723 Mg2+/Mn2+ binding site [ion binding]; other site 279010010724 Chromate transporter; Region: Chromate_transp; pfam02417 279010010725 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 279010010726 Chromate transporter; Region: Chromate_transp; pfam02417 279010010727 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010010728 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279010010729 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010010730 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 279010010731 Walker A/P-loop; other site 279010010732 ATP binding site [chemical binding]; other site 279010010733 Q-loop/lid; other site 279010010734 ABC transporter signature motif; other site 279010010735 Walker B; other site 279010010736 D-loop; other site 279010010737 H-loop/switch region; other site 279010010738 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 279010010739 active site 279010010740 catalytic triad [active] 279010010741 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 279010010742 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 279010010743 putative substrate translocation pore; other site 279010010744 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010010745 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010010746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010747 Walker A/P-loop; other site 279010010748 ATP binding site [chemical binding]; other site 279010010749 Q-loop/lid; other site 279010010750 ABC transporter signature motif; other site 279010010751 Walker B; other site 279010010752 D-loop; other site 279010010753 H-loop/switch region; other site 279010010754 RNA polymerase sigma factor SigY; Reviewed; Region: PRK09638 279010010755 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010010756 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 279010010757 DNA binding residues [nucleotide binding] 279010010758 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 279010010759 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279010010760 putative substrate translocation pore; other site 279010010761 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 279010010762 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 279010010763 tetramer interface [polypeptide binding]; other site 279010010764 heme binding pocket [chemical binding]; other site 279010010765 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 279010010766 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 279010010767 tetramer interface [polypeptide binding]; other site 279010010768 heme binding pocket [chemical binding]; other site 279010010769 NADPH binding site [chemical binding]; other site 279010010770 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279010010771 metal binding site 2 [ion binding]; metal-binding site 279010010772 putative DNA binding helix; other site 279010010773 metal binding site 1 [ion binding]; metal-binding site 279010010774 dimer interface [polypeptide binding]; other site 279010010775 structural Zn2+ binding site [ion binding]; other site 279010010776 ferrochelatase; Provisional; Region: PRK12435 279010010777 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 279010010778 C-terminal domain interface [polypeptide binding]; other site 279010010779 active site 279010010780 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 279010010781 active site 279010010782 N-terminal domain interface [polypeptide binding]; other site 279010010783 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010010784 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010010785 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010786 Walker A/P-loop; other site 279010010787 ATP binding site [chemical binding]; other site 279010010788 Q-loop/lid; other site 279010010789 ABC transporter signature motif; other site 279010010790 Walker B; other site 279010010791 D-loop; other site 279010010792 H-loop/switch region; other site 279010010793 ABC-2 type transporter; Region: ABC2_membrane; cl11417 279010010794 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 279010010795 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 279010010796 Walker A/P-loop; other site 279010010797 ATP binding site [chemical binding]; other site 279010010798 Q-loop/lid; other site 279010010799 ABC transporter signature motif; other site 279010010800 Walker B; other site 279010010801 D-loop; other site 279010010802 H-loop/switch region; other site 279010010803 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 279010010804 non-specific DNA binding site [nucleotide binding]; other site 279010010805 salt bridge; other site 279010010806 sequence-specific DNA binding site [nucleotide binding]; other site 279010010807 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 279010010808 active site 279010010809 catalytic residues [active] 279010010810 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 279010010811 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_C39F; cd02425 279010010812 putative active site [active] 279010010813 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010010814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010815 Walker A/P-loop; other site 279010010816 ATP binding site [chemical binding]; other site 279010010817 Q-loop/lid; other site 279010010818 ABC transporter signature motif; other site 279010010819 Walker B; other site 279010010820 D-loop; other site 279010010821 H-loop/switch region; other site 279010010822 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 279010010823 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 279010010824 active site 279010010825 zinc binding site [ion binding]; other site 279010010826 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 279010010827 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 279010010828 active site 279010010829 zinc binding site [ion binding]; other site 279010010830 Pectate lyase; Region: Pec_lyase_C; cl01593 279010010831 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 279010010832 putative substrate binding site [chemical binding]; other site 279010010833 putative ATP binding site [chemical binding]; other site 279010010834 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 279010010835 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010010836 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 279010010837 Walker A/P-loop; other site 279010010838 ATP binding site [chemical binding]; other site 279010010839 Q-loop/lid; other site 279010010840 ABC transporter signature motif; other site 279010010841 Walker B; other site 279010010842 D-loop; other site 279010010843 H-loop/switch region; other site 279010010844 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 279010010845 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 279010010846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010010847 Walker A/P-loop; other site 279010010848 ATP binding site [chemical binding]; other site 279010010849 Q-loop/lid; other site 279010010850 ABC transporter signature motif; other site 279010010851 Walker B; other site 279010010852 D-loop; other site 279010010853 H-loop/switch region; other site 279010010854 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 279010010855 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 279010010856 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 279010010857 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 279010010858 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 279010010859 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 279010010860 Malic enzyme, N-terminal domain; Region: malic; pfam00390 279010010861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010010862 NAD(P) binding pocket [chemical binding]; other site 279010010863 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 279010010864 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010010865 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 279010010866 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 279010010867 Aspartase; Region: Aspartase; cd01357 279010010868 active sites [active] 279010010869 tetramer interface [polypeptide binding]; other site 279010010870 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 279010010871 active site 279010010872 homodimer interface [polypeptide binding]; other site 279010010873 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 279010010874 non-specific DNA binding site [nucleotide binding]; other site 279010010875 salt bridge; other site 279010010876 sequence-specific DNA binding site [nucleotide binding]; other site 279010010877 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 279010010878 adaptive-response sensory kinase; Validated; Region: PRK09303 279010010879 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 279010010880 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 279010010881 ATP binding site [chemical binding]; other site 279010010882 Mg2+ binding site [ion binding]; other site 279010010883 G-X-G motif; other site 279010010884 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010010885 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 279010010886 Walker A/P-loop; other site 279010010887 ATP binding site [chemical binding]; other site 279010010888 Q-loop/lid; other site 279010010889 ABC transporter signature motif; other site 279010010890 Walker B; other site 279010010891 D-loop; other site 279010010892 H-loop/switch region; other site 279010010893 FtsX-like permease family; Region: FtsX; pfam02687 279010010894 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 279010010895 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 279010010896 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 279010010897 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 279010010898 DXD motif; other site 279010010899 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 279010010900 PilZ domain; Region: PilZ; cl01260 279010010901 PilZ domain; Region: PilZ; cl01260 279010010902 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 279010010903 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 279010010904 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 279010010905 active site 279010010906 catalytic site [active] 279010010907 Excalibur calcium-binding domain; Region: Excalibur; cl05460 279010010908 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 279010010909 Sulfatase; Region: Sulfatase; cl10460 279010010910 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010010911 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 279010010912 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 279010010913 Arginine repressor [Transcription]; Region: ArgR; COG1438 279010010914 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 279010010915 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 279010010916 Amidinotransferase; Region: Amidinotransf; cl12043 279010010917 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 279010010918 ornithine carbamoyltransferase; Validated; Region: PRK02102 279010010919 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 279010010920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010010921 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 279010010922 Amino acid permease; Region: AA_permease; cl00524 279010010923 carbamate kinase; Reviewed; Region: PRK12686 279010010924 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 279010010925 putative substrate binding site [chemical binding]; other site 279010010926 nucleotide binding site [chemical binding]; other site 279010010927 nucleotide binding site [chemical binding]; other site 279010010928 homodimer interface [polypeptide binding]; other site 279010010929 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279010010930 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 279010010931 ligand binding site [chemical binding]; other site 279010010932 flexible hinge region; other site 279010010933 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 279010010934 putative switch regulator; other site 279010010935 non-specific DNA interactions [nucleotide binding]; other site 279010010936 DNA binding site [nucleotide binding] 279010010937 sequence specific DNA binding site [nucleotide binding]; other site 279010010938 putative cAMP binding site [chemical binding]; other site 279010010939 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010010940 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010010941 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 279010010942 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 279010010943 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010010944 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 279010010945 DNA binding residues [nucleotide binding] 279010010946 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 279010010947 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 279010010948 FeS/SAM binding site; other site 279010010949 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 279010010950 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 279010010951 hypothetical protein; Provisional; Region: PHA02943 279010010952 Ycf46; Provisional; Region: ycf46; CHL00195 279010010953 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 279010010954 Walker A motif; other site 279010010955 ATP binding site [chemical binding]; other site 279010010956 Walker B motif; other site 279010010957 arginine finger; other site 279010010958 peptidase T; Region: peptidase-T; TIGR01882 279010010959 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 279010010960 metal binding site [ion binding]; metal-binding site 279010010961 dimer interface [polypeptide binding]; other site 279010010962 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 279010010963 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 279010010964 substrate binding [chemical binding]; other site 279010010965 active site 279010010966 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 279010010967 galactoside permease; Reviewed; Region: lacY; PRK09528 279010010968 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 279010010969 putative substrate translocation pore; other site 279010010970 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 279010010971 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 279010010972 dimer interface [polypeptide binding]; other site 279010010973 conserved gate region; other site 279010010974 putative PBP binding loops; other site 279010010975 ABC-ATPase subunit interface; other site 279010010976 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 279010010977 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 279010010978 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 279010010979 putative PBP binding loops; other site 279010010980 dimer interface [polypeptide binding]; other site 279010010981 ABC-ATPase subunit interface; other site 279010010982 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 279010010983 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 279010010984 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010010985 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010010986 DNA binding site [nucleotide binding] 279010010987 domain linker motif; other site 279010010988 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 279010010989 dimerization interface [polypeptide binding]; other site 279010010990 ligand binding site [chemical binding]; other site 279010010991 sodium binding site [ion binding]; other site 279010010992 UTRA domain; Region: UTRA; cl01230 279010010993 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 279010010994 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 279010010995 substrate binding site [chemical binding]; other site 279010010996 THF binding site; other site 279010010997 zinc-binding site [ion binding]; other site 279010010998 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 279010010999 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 279010011000 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 279010011001 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 279010011002 Ligand binding site; other site 279010011003 Putative Catalytic site; other site 279010011004 DXD motif; other site 279010011005 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279010011006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010011007 NAD(P) binding site [chemical binding]; other site 279010011008 active site 279010011009 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 279010011010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 279010011011 nucleoside transporter; Region: nupC; TIGR00804 279010011012 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 279010011013 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 279010011014 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 279010011015 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010011016 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 279010011017 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 279010011018 active site turn [active] 279010011019 phosphorylation site [posttranslational modification] 279010011020 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010011021 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; cl00162 279010011022 HPr interaction site; other site 279010011023 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279010011024 active site 279010011025 phosphorylation site [posttranslational modification] 279010011026 transcriptional antiterminator BglG; Provisional; Region: PRK09772 279010011027 CAT RNA binding domain; Region: CAT_RBD; cl03904 279010011028 PRD domain; Region: PRD; cl15445 279010011029 PRD domain; Region: PRD; cl15445 279010011030 Cobalt transport protein; Region: CbiQ; cl00463 279010011031 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 279010011032 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 279010011033 Walker A/P-loop; other site 279010011034 ATP binding site [chemical binding]; other site 279010011035 Q-loop/lid; other site 279010011036 ABC transporter signature motif; other site 279010011037 Walker B; other site 279010011038 D-loop; other site 279010011039 H-loop/switch region; other site 279010011040 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 279010011041 Walker A/P-loop; other site 279010011042 ATP binding site [chemical binding]; other site 279010011043 Q-loop/lid; other site 279010011044 ABC transporter signature motif; other site 279010011045 Walker B; other site 279010011046 D-loop; other site 279010011047 H-loop/switch region; other site 279010011048 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 279010011049 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 279010011050 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 279010011051 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 279010011052 tetramer interface [polypeptide binding]; other site 279010011053 active site 279010011054 Mg2+/Mn2+ binding site [ion binding]; other site 279010011055 malate synthase A; Region: malate_syn_A; TIGR01344 279010011056 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 279010011057 active site 279010011058 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 279010011059 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 279010011060 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 279010011061 FtsX-like permease family; Region: FtsX; pfam02687 279010011062 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010011063 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 279010011064 Walker A/P-loop; other site 279010011065 ATP binding site [chemical binding]; other site 279010011066 Q-loop/lid; other site 279010011067 ABC transporter signature motif; other site 279010011068 Walker B; other site 279010011069 D-loop; other site 279010011070 H-loop/switch region; other site 279010011071 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279010011072 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 279010011073 ATP binding site [chemical binding]; other site 279010011074 Mg2+ binding site [ion binding]; other site 279010011075 G-X-G motif; other site 279010011076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010011077 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 279010011078 active site 279010011079 phosphorylation site [posttranslational modification] 279010011080 intermolecular recognition site; other site 279010011081 dimerization interface [polypeptide binding]; other site 279010011082 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 279010011083 DNA binding site [nucleotide binding] 279010011084 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279010011085 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 279010011086 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 279010011087 active site turn [active] 279010011088 phosphorylation site [posttranslational modification] 279010011089 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010011090 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 279010011091 HPr interaction site; other site 279010011092 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279010011093 active site 279010011094 phosphorylation site [posttranslational modification] 279010011095 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 279010011096 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 279010011097 active site 279010011098 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 279010011099 substrate binding site [chemical binding]; other site 279010011100 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 279010011101 active site 279010011102 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 279010011103 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 279010011104 ATP binding site [chemical binding]; other site 279010011105 Mg++ binding site [ion binding]; other site 279010011106 motif III; other site 279010011107 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 279010011108 nucleotide binding region [chemical binding]; other site 279010011109 ATP-binding site [chemical binding]; other site 279010011110 DbpA RNA binding domain; Region: DbpA; pfam03880 279010011111 Bacillus transposase protein; Region: Transposase_30; pfam04740 279010011112 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 279010011113 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 279010011114 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279010011115 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 279010011116 nucleoside transporter; Region: nupC; TIGR00804 279010011117 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 279010011118 Nucleoside recognition; Region: Gate; cl00486 279010011119 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 279010011120 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 279010011121 intersubunit interface [polypeptide binding]; other site 279010011122 active site 279010011123 catalytic residue [active] 279010011124 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 279010011125 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; cl15358 279010011126 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 279010011127 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279010011128 metal binding site [ion binding]; metal-binding site 279010011129 active site 279010011130 I-site; other site 279010011131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5298 279010011132 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 279010011133 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 279010011134 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 279010011135 DXD motif; other site 279010011136 cellulose synthase regulator protein; Provisional; Region: PRK11114 279010011137 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 279010011138 cellulose synthase regulator protein; Provisional; Region: PRK11114 279010011139 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 279010011140 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 279010011141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279010011142 homodimer interface [polypeptide binding]; other site 279010011143 catalytic residue [active] 279010011144 Prephenate dehydratase; Region: PDT; pfam00800 279010011145 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 279010011146 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 279010011147 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 279010011148 EamA-like transporter family; Region: EamA; cl01037 279010011149 hypothetical protein; Provisional; Region: PRK08185 279010011150 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 279010011151 intersubunit interface [polypeptide binding]; other site 279010011152 active site 279010011153 zinc binding site [ion binding]; other site 279010011154 Na+ binding site [ion binding]; other site 279010011155 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279010011156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010011157 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279010011158 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; cl12060 279010011159 DNA interaction; other site 279010011160 Metal-binding active site; metal-binding site 279010011161 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279010011162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010011163 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 279010011164 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 279010011165 putative substrate translocation pore; other site 279010011166 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279010011167 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 279010011168 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279010011169 PYR/PP interface [polypeptide binding]; other site 279010011170 dimer interface [polypeptide binding]; other site 279010011171 TPP binding site [chemical binding]; other site 279010011172 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 279010011173 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 279010011174 TPP-binding site; other site 279010011175 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279010011176 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 279010011177 substrate binding site [chemical binding]; other site 279010011178 ATP binding site [chemical binding]; other site 279010011179 KduI/IolB family; Region: KduI; cl01508 279010011180 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 279010011181 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279010011182 tetrameric interface [polypeptide binding]; other site 279010011183 NAD binding site [chemical binding]; other site 279010011184 catalytic residues [active] 279010011185 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279010011186 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010011187 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 279010011188 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 279010011189 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 279010011190 active site 279010011191 catalytic tetrad [active] 279010011192 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 279010011193 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 279010011194 active site 279010011195 catalytic site [active] 279010011196 metal binding site [ion binding]; metal-binding site 279010011197 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 279010011198 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 279010011199 putative substrate translocation pore; other site 279010011200 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 279010011201 heat shock protein 90; Provisional; Region: PRK05218 279010011202 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 279010011203 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279010011204 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 279010011205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010011206 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 279010011207 ABC transporter; Region: ABC_tran_2; pfam12848 279010011208 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 279010011209 sugar phosphate phosphatase; Provisional; Region: PRK10513 279010011210 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 279010011211 active site 279010011212 motif I; other site 279010011213 motif II; other site 279010011214 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 279010011215 Glycerol-1-phosphate dehydrogenase-like; Region: G1PDH-like; cd08174 279010011216 active site 279010011217 metal binding site [ion binding]; metal-binding site 279010011218 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 279010011219 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 279010011220 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 279010011221 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 279010011222 putative ligand binding residues [chemical binding]; other site 279010011223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279010011224 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 279010011225 active site 279010011226 metal binding site [ion binding]; metal-binding site 279010011227 Virus attachment protein p12 family; Region: P12; pfam12669 279010011228 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 279010011229 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 279010011230 G1 box; other site 279010011231 GTP/Mg2+ binding site [chemical binding]; other site 279010011232 Switch I region; other site 279010011233 G2 box; other site 279010011234 G3 box; other site 279010011235 Switch II region; other site 279010011236 G4 box; other site 279010011237 G5 box; other site 279010011238 Nucleoside recognition; Region: Gate; cl00486 279010011239 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 279010011240 Nucleoside recognition; Region: Gate; cl00486 279010011241 FeoA domain; Region: FeoA; cl00838 279010011242 OpgC protein; Region: OpgC_C; cl00792 279010011243 Acyltransferase family; Region: Acyl_transf_3; pfam01757 279010011244 FtsX-like permease family; Region: FtsX; pfam02687 279010011245 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279010011246 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 279010011247 Walker A/P-loop; other site 279010011248 ATP binding site [chemical binding]; other site 279010011249 Q-loop/lid; other site 279010011250 ABC transporter signature motif; other site 279010011251 Walker B; other site 279010011252 D-loop; other site 279010011253 H-loop/switch region; other site 279010011254 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 279010011255 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 279010011256 ATP binding site [chemical binding]; other site 279010011257 Mg2+ binding site [ion binding]; other site 279010011258 G-X-G motif; other site 279010011259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010011260 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 279010011261 active site 279010011262 phosphorylation site [posttranslational modification] 279010011263 intermolecular recognition site; other site 279010011264 dimerization interface [polypeptide binding]; other site 279010011265 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 279010011266 DNA binding site [nucleotide binding] 279010011267 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 279010011268 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 279010011269 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279010011270 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These transmembrane...; Region: TarH; cl00144 279010011271 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 279010011272 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 279010011273 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 279010011274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010011275 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 279010011276 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 279010011277 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 279010011278 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 279010011279 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 279010011280 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 279010011281 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 279010011282 dimer interface [polypeptide binding]; other site 279010011283 conserved gate region; other site 279010011284 putative PBP binding loops; other site 279010011285 ABC-ATPase subunit interface; other site 279010011286 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 279010011287 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 279010011288 dimer interface [polypeptide binding]; other site 279010011289 conserved gate region; other site 279010011290 ABC-ATPase subunit interface; other site 279010011291 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 279010011292 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 279010011293 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279010011294 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279010011295 DNA binding site [nucleotide binding] 279010011296 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 279010011297 putative dimerization interface [polypeptide binding]; other site 279010011298 putative ligand binding site [chemical binding]; other site 279010011299 galactokinase; Provisional; Region: PRK05322 279010011300 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 279010011301 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 279010011302 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 279010011303 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279010011304 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 279010011305 NAD binding site [chemical binding]; other site 279010011306 homodimer interface [polypeptide binding]; other site 279010011307 active site 279010011308 substrate binding site [chemical binding]; other site 279010011309 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 279010011310 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 279010011311 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 279010011312 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 279010011313 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 279010011314 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 279010011315 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279010011316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010011317 DNA-binding site [nucleotide binding]; DNA binding site 279010011318 FCD domain; Region: FCD; cl11656 279010011319 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 279010011320 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 279010011321 N- and C-terminal domain interface [polypeptide binding]; other site 279010011322 putative active site [active] 279010011323 catalytic site [active] 279010011324 metal binding site [ion binding]; metal-binding site 279010011325 carbohydrate binding site [chemical binding]; other site 279010011326 ATP binding site [chemical binding]; other site 279010011327 gluconate transporter; Region: gntP; TIGR00791 279010011328 GntP family permease; Region: GntP_permease; cl15264 279010011329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010011330 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 279010011331 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 279010011332 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 279010011333 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 279010011334 putative catalytic cysteine [active] 279010011335 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 279010011336 putative active site [active] 279010011337 metal binding site [ion binding]; metal-binding site 279010011338 peroxiredoxin; Region: AhpC; TIGR03137 279010011339 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 279010011340 dimer interface [polypeptide binding]; other site 279010011341 decamer (pentamer of dimers) interface [polypeptide binding]; other site 279010011342 catalytic triad [active] 279010011343 peroxidatic and resolving cysteines [active] 279010011344 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 279010011345 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 279010011346 catalytic residue [active] 279010011347 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 279010011348 catalytic residues [active] 279010011349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279010011350 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279010011351 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 279010011352 Walker A/P-loop; other site 279010011353 ATP binding site [chemical binding]; other site 279010011354 Q-loop/lid; other site 279010011355 ABC transporter signature motif; other site 279010011356 Walker B; other site 279010011357 D-loop; other site 279010011358 H-loop/switch region; other site 279010011359 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279010011360 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 279010011361 active site 279010011362 phosphorylation site [posttranslational modification] 279010011363 intermolecular recognition site; other site 279010011364 dimerization interface [polypeptide binding]; other site 279010011365 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 279010011366 DNA binding residues [nucleotide binding] 279010011367 dimerization interface [polypeptide binding]; other site 279010011368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010011369 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 279010011370 Walker A/P-loop; other site 279010011371 ATP binding site [chemical binding]; other site 279010011372 Q-loop/lid; other site 279010011373 ABC transporter signature motif; other site 279010011374 Walker B; other site 279010011375 D-loop; other site 279010011376 H-loop/switch region; other site 279010011377 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 279010011378 DNA binding site [nucleotide binding] 279010011379 Int/Topo IB signature motif; other site 279010011380 active site 279010011381 catalytic residues [active] 279010011382 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 279010011383 active site 279010011384 NTP binding site [chemical binding]; other site 279010011385 metal binding triad [ion binding]; metal-binding site 279010011386 Protein of unknown function DUF45; Region: DUF45; cl00636 279010011387 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 279010011388 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 279010011389 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 279010011390 ATP binding site [chemical binding]; other site 279010011391 putative Mg++ binding site [ion binding]; other site 279010011392 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 279010011393 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 279010011394 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 279010011395 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 279010011396 Virulence protein [General function prediction only]; Region: COG3943 279010011397 HsdM N-terminal domain; Region: HsdM_N; pfam12161 279010011398 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 279010011399 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; cl12011 279010011400 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 279010011401 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 279010011402 catalytic residues [active] 279010011403 catalytic nucleophile [active] 279010011404 Recombinase; Region: Recombinase; pfam07508 279010011405 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 279010011406 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279010011407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279010011408 Coenzyme A binding pocket [chemical binding]; other site 279010011409 Uncharacterized conserved protein [Function unknown]; Region: COG1912 279010011410 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 279010011411 serine endoprotease; Provisional; Region: PRK10898 279010011412 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 279010011413 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 279010011414 protein binding site [polypeptide binding]; other site 279010011415 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 279010011416 YycH protein; Region: YycI; cl02015 279010011417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 279010011418 YycH protein; Region: YycH; pfam07435 279010011419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 279010011420 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 279010011421 dimerization interface [polypeptide binding]; other site 279010011422 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 279010011423 putative active site [active] 279010011424 heme pocket [chemical binding]; other site 279010011425 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 279010011426 dimer interface [polypeptide binding]; other site 279010011427 phosphorylation site [posttranslational modification] 279010011428 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 279010011429 ATP binding site [chemical binding]; other site 279010011430 Mg2+ binding site [ion binding]; other site 279010011431 G-X-G motif; other site 279010011432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279010011433 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 279010011434 active site 279010011435 phosphorylation site [posttranslational modification] 279010011436 intermolecular recognition site; other site 279010011437 dimerization interface [polypeptide binding]; other site 279010011438 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 279010011439 DNA binding site [nucleotide binding] 279010011440 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 279010011441 nudix motif; other site 279010011442 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 279010011443 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 279010011444 GDP-binding site [chemical binding]; other site 279010011445 ACT binding site; other site 279010011446 IMP binding site; other site 279010011447 replicative DNA helicase; Provisional; Region: PRK05748 279010011448 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 279010011449 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 279010011450 Walker A motif; other site 279010011451 ATP binding site [chemical binding]; other site 279010011452 Walker B motif; other site 279010011453 DNA binding loops [nucleotide binding] 279010011454 cyanate transporter; Region: CynX; TIGR00896 279010011455 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 279010011456 putative substrate translocation pore; other site 279010011457 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 279010011458 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 279010011459 active site 279010011460 dimer interface [polypeptide binding]; other site 279010011461 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 279010011462 active site 279010011463 trimer interface [polypeptide binding]; other site 279010011464 allosteric site; other site 279010011465 active site lid [active] 279010011466 hexamer (dimer of trimers) interface [polypeptide binding]; other site 279010011467 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 279010011468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279010011469 DNA-binding site [nucleotide binding]; DNA binding site 279010011470 UTRA domain; Region: UTRA; cl01230 279010011471 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: PRK12570 279010011472 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 279010011473 putative active site [active] 279010011474 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 279010011475 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 279010011476 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 279010011477 active site turn [active] 279010011478 phosphorylation site [posttranslational modification] 279010011479 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 279010011480 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 279010011481 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 279010011482 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 279010011483 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 279010011484 DHH family; Region: DHH; pfam01368 279010011485 DHHA1 domain; Region: DHHA1; pfam02272 279010011486 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 279010011487 Coat F domain; Region: Coat_F; cl02368 279010011488 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 279010011489 Ligand Binding Site [chemical binding]; other site 279010011490 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 279010011491 Bacitracin resistance protein BacA; Region: BacA; cl00858 279010011492 Permease family; Region: Xan_ur_permease; cl00967 279010011493 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 279010011494 D-galactonate transporter; Region: 2A0114; TIGR00893 279010011495 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 279010011496 putative substrate translocation pore; other site 279010011497 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 279010011498 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 279010011499 dimer interface [polypeptide binding]; other site 279010011500 ssDNA binding site [nucleotide binding]; other site 279010011501 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279010011502 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 279010011503 GTP-binding protein YchF; Reviewed; Region: PRK09601 279010011504 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 279010011505 G1 box; other site 279010011506 GTP/Mg2+ binding site [chemical binding]; other site 279010011507 Switch I region; other site 279010011508 G2 box; other site 279010011509 Switch II region; other site 279010011510 G3 box; other site 279010011511 G4 box; other site 279010011512 G5 box; other site 279010011513 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 279010011514 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 279010011515 Uncharacterized membrane protein [Function unknown]; Region: COG3949 279010011516 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 279010011517 ParB-like partition proteins; Region: parB_part; TIGR00180 279010011518 ParB-like nuclease domain; Region: ParBc; cl02129 279010011519 KorB domain; Region: KorB; pfam08535 279010011520 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 279010011521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 279010011522 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 279010011523 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 279010011524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279010011525 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 279010011526 DNA binding residues [nucleotide binding] 279010011527 ParB-like partition proteins; Region: parB_part; TIGR00180 279010011528 ParB-like nuclease domain; Region: ParBc; cl02129 279010011529 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 279010011530 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 279010011531 S-adenosylmethionine binding site [chemical binding]; other site 279010011532 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 279010011533 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 279010011534 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 279010011535 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 279010011536 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 279010011537 G1 box; other site 279010011538 GTP/Mg2+ binding site [chemical binding]; other site 279010011539 Switch I region; other site 279010011540 G2 box; other site 279010011541 Switch II region; other site 279010011542 G3 box; other site 279010011543 G4 box; other site 279010011544 G5 box; other site 279010011545 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 279010011546 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 279010011547 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 279010011548 G-X-X-G motif; other site 279010011549 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 279010011550 RxxxH motif; other site 279010011551 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 279010011552 Ribonuclease P; Region: Ribonuclease_P; cl00457 279010011553 Ribosomal protein L34; Region: Ribosomal_L34; cl00370