-- dump date 20120504_134114 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272558000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272558000002 hypothetical protein; Validated; Region: PRK06672 272558000003 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 272558000004 Walker A motif; other site 272558000005 ATP binding site [chemical binding]; other site 272558000006 Walker B motif; other site 272558000007 arginine finger; other site 272558000008 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 272558000009 DnaA box-binding interface [nucleotide binding]; other site 272558000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 272558000011 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 272558000012 putative DNA binding surface [nucleotide binding]; other site 272558000013 dimer interface [polypeptide binding]; other site 272558000014 beta-clamp/clamp loader binding surface; other site 272558000015 beta-clamp/translesion DNA polymerase binding surface; other site 272558000016 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 272558000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 272558000018 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 272558000019 Walker A/P-loop; other site 272558000020 ATP binding site [chemical binding]; other site 272558000021 Q-loop/lid; other site 272558000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000023 ABC transporter signature motif; other site 272558000024 Walker B; other site 272558000025 D-loop; other site 272558000026 H-loop/switch region; other site 272558000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 272558000028 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 272558000029 Mg2+ binding site [ion binding]; other site 272558000030 G-X-G motif; other site 272558000031 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 272558000032 anchoring element; other site 272558000033 dimer interface [polypeptide binding]; other site 272558000034 ATP binding site [chemical binding]; other site 272558000035 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 272558000036 active site 272558000037 putative metal-binding site [ion binding]; other site 272558000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272558000039 DNA gyrase subunit A; Validated; Region: PRK05560 272558000040 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 272558000041 CAP-like domain; other site 272558000042 active site 272558000043 primary dimer interface [polypeptide binding]; other site 272558000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558000050 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 272558000051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558000052 Zn2+ binding site [ion binding]; other site 272558000053 Mg2+ binding site [ion binding]; other site 272558000054 Short C-terminal domain; Region: SHOCT; cl01373 272558000055 Phage-related protein [Function unknown]; Region: COG5412 272558000056 Phage tail protein; Region: Sipho_tail; cl11462 272558000057 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 272558000058 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 272558000059 active site 272558000060 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 272558000061 YaaC-like Protein; Region: YaaC; pfam14175 272558000062 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 272558000063 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 272558000064 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 272558000065 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 272558000066 active site 272558000067 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272558000068 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272558000069 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 272558000070 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 272558000071 active site 272558000072 multimer interface [polypeptide binding]; other site 272558000073 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 272558000074 predicted active site [active] 272558000075 catalytic triad [active] 272558000076 seryl-tRNA synthetase; Provisional; Region: PRK05431 272558000077 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272558000078 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 272558000079 dimer interface [polypeptide binding]; other site 272558000080 active site 272558000081 motif 1; other site 272558000082 motif 2; other site 272558000083 motif 3; other site 272558000084 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 272558000085 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 272558000086 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 272558000087 active site 272558000088 metal binding site [ion binding]; metal-binding site 272558000089 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272558000090 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272558000091 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 272558000092 Walker A/P-loop; other site 272558000093 ATP binding site [chemical binding]; other site 272558000094 Q-loop/lid; other site 272558000095 ABC transporter signature motif; other site 272558000096 Walker B; other site 272558000097 D-loop; other site 272558000098 H-loop/switch region; other site 272558000099 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558000100 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272558000101 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 272558000102 Walker A/P-loop; other site 272558000103 ATP binding site [chemical binding]; other site 272558000104 Q-loop/lid; other site 272558000105 ABC transporter signature motif; other site 272558000106 Walker B; other site 272558000107 D-loop; other site 272558000108 H-loop/switch region; other site 272558000109 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558000110 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272558000111 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 272558000112 dimer interface [polypeptide binding]; other site 272558000113 conserved gate region; other site 272558000114 putative PBP binding loops; other site 272558000115 ABC-ATPase subunit interface; other site 272558000116 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 272558000117 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272558000118 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 272558000119 dimer interface [polypeptide binding]; other site 272558000120 ABC-ATPase subunit interface; other site 272558000121 putative PBP binding loops; other site 272558000122 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 272558000123 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558000124 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 272558000125 nucleoside/Zn binding site; other site 272558000126 dimer interface [polypeptide binding]; other site 272558000127 catalytic motif [active] 272558000128 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 272558000129 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 272558000130 Walker A motif; other site 272558000131 ATP binding site [chemical binding]; other site 272558000132 Walker B motif; other site 272558000133 arginine finger; other site 272558000134 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 272558000135 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 272558000136 recombination protein RecR; Reviewed; Region: recR; PRK00076 272558000137 RecR protein; Region: RecR; pfam02132 272558000138 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 272558000139 putative active site [active] 272558000140 putative metal-binding site [ion binding]; other site 272558000141 tetramer interface [polypeptide binding]; other site 272558000142 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 272558000143 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 272558000144 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272558000145 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272558000146 putative active site [active] 272558000147 putative NTP binding site [chemical binding]; other site 272558000148 putative nucleic acid binding site [nucleotide binding]; other site 272558000149 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272558000150 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 272558000151 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272558000152 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 272558000153 homodimer interface [polypeptide binding]; other site 272558000154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558000155 catalytic residue [active] 272558000156 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272558000157 thymidylate kinase; Validated; Region: tmk; PRK00698 272558000158 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 272558000159 TMP-binding site; other site 272558000160 ATP-binding site [chemical binding]; other site 272558000161 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272558000162 DNA polymerase III subunit delta'; Validated; Region: PRK08058 272558000163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000164 PSP1 C-terminal conserved region; Region: PSP1; cl00770 272558000165 TSC-22/dip/bun family; Region: TSC22; cl01853 272558000166 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 272558000167 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 272558000168 S-adenosylmethionine binding site [chemical binding]; other site 272558000169 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 272558000170 GIY-YIG motif/motif A; other site 272558000171 putative active site [active] 272558000172 putative metal binding site [ion binding]; other site 272558000173 Predicted methyltransferases [General function prediction only]; Region: COG0313 272558000174 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272558000175 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272558000176 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272558000177 NurA domain; Region: NurA; cl09134 272558000178 HerA helicase [Replication, recombination, and repair]; Region: COG0433 272558000179 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 272558000180 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272558000181 active site 272558000182 HIGH motif; other site 272558000183 KMSKS motif; other site 272558000184 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272558000185 tRNA binding surface [nucleotide binding]; other site 272558000186 anticodon binding site; other site 272558000187 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 272558000188 dimer interface [polypeptide binding]; other site 272558000189 putative tRNA-binding site [nucleotide binding]; other site 272558000190 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272558000191 active site 272558000192 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272558000193 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272558000194 Domain of unknown function (DUF348); Region: DUF348; pfam03990 272558000195 G5 domain; Region: G5; pfam07501 272558000196 3D domain; Region: 3D; cl01439 272558000197 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 272558000198 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 272558000199 putative active site [active] 272558000200 putative metal binding site [ion binding]; other site 272558000201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558000202 YabG peptidase U57; Region: Peptidase_U57; cl05250 272558000203 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 272558000204 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272558000205 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 272558000206 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272558000207 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272558000208 pur operon repressor; Provisional; Region: PRK09213 272558000209 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 272558000210 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558000211 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 272558000212 homotrimer interaction site [polypeptide binding]; other site 272558000213 putative active site [active] 272558000214 SpoVG; Region: SpoVG; cl00915 272558000215 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 272558000216 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 272558000217 Substrate binding site; other site 272558000218 Mg++ binding site; other site 272558000219 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 272558000220 active site 272558000221 substrate binding site [chemical binding]; other site 272558000222 CoA binding site [chemical binding]; other site 272558000223 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 272558000224 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 272558000225 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272558000226 active site 272558000227 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272558000228 5S rRNA interface [nucleotide binding]; other site 272558000229 CTC domain interface [polypeptide binding]; other site 272558000230 L16 interface [polypeptide binding]; other site 272558000231 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 272558000232 putative active site [active] 272558000233 catalytic residue [active] 272558000234 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 272558000235 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 272558000236 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 272558000237 ATP binding site [chemical binding]; other site 272558000238 putative Mg++ binding site [ion binding]; other site 272558000239 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 272558000240 nucleotide binding region [chemical binding]; other site 272558000241 ATP-binding site [chemical binding]; other site 272558000242 TRCF domain; Region: TRCF; cl04088 272558000243 stage V sporulation protein T; Region: spore_V_T; TIGR02851 272558000244 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272558000245 MatE; Region: MatE; cl10513 272558000246 MatE; Region: MatE; cl10513 272558000247 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 272558000248 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272558000249 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272558000250 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272558000251 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 272558000252 RNA binding surface [nucleotide binding]; other site 272558000253 YabP family; Region: YabP; cl06766 272558000254 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 272558000255 Septum formation initiator; Region: DivIC; cl11433 272558000256 hypothetical protein; Provisional; Region: PRK08582 272558000257 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 272558000258 RNA binding site [nucleotide binding]; other site 272558000259 stage II sporulation protein E; Region: spore_II_E; TIGR02865 272558000260 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 272558000261 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 272558000262 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 272558000263 metal ion-dependent adhesion site (MIDAS); other site 272558000264 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558000265 active site 272558000266 ATP binding site [chemical binding]; other site 272558000267 substrate binding site [chemical binding]; other site 272558000268 activation loop (A-loop); other site 272558000269 Uncharacterized conserved protein [Function unknown]; Region: COG2966 272558000270 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 272558000271 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 272558000272 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 272558000273 Ligand Binding Site [chemical binding]; other site 272558000274 B3/4 domain; Region: B3_4; cl11458 272558000275 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272558000276 active site 272558000277 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 272558000278 FtsH Extracellular; Region: FtsH_ext; pfam06480 272558000279 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 272558000280 Walker A motif; other site 272558000281 ATP binding site [chemical binding]; other site 272558000282 Walker B motif; other site 272558000283 arginine finger; other site 272558000284 Peptidase family M41; Region: Peptidase_M41; pfam01434 272558000285 Type III pantothenate kinase; Region: Pan_kinase; cl09130 272558000286 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 272558000287 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 272558000288 dimerization interface [polypeptide binding]; other site 272558000289 domain crossover interface; other site 272558000290 redox-dependent activation switch; other site 272558000291 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272558000292 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 272558000293 dimer interface [polypeptide binding]; other site 272558000294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558000295 catalytic residue [active] 272558000296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558000297 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558000298 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272558000299 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 272558000300 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272558000301 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 272558000302 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 272558000303 glutamine binding [chemical binding]; other site 272558000304 catalytic triad [active] 272558000305 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 272558000306 homodimer interface [polypeptide binding]; other site 272558000307 substrate-cofactor binding pocket; other site 272558000308 Aminotransferase class IV; Region: Aminotran_4; pfam01063 272558000309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558000310 catalytic residue [active] 272558000311 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 272558000312 dihydropteroate synthase; Region: DHPS; TIGR01496 272558000313 substrate binding pocket [chemical binding]; other site 272558000314 dimer interface [polypeptide binding]; other site 272558000315 inhibitor binding site; inhibition site 272558000316 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 272558000317 homooctamer interface [polypeptide binding]; other site 272558000318 active site 272558000319 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 272558000320 catalytic center binding site [active] 272558000321 ATP binding site [chemical binding]; other site 272558000322 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 272558000323 non-specific DNA binding site [nucleotide binding]; other site 272558000324 salt bridge; other site 272558000325 sequence-specific DNA binding site [nucleotide binding]; other site 272558000326 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 272558000327 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 272558000328 FMN binding site [chemical binding]; other site 272558000329 active site 272558000330 catalytic residues [active] 272558000331 substrate binding site [chemical binding]; other site 272558000332 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 272558000333 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 272558000334 dimer interface [polypeptide binding]; other site 272558000335 putative anticodon binding site; other site 272558000336 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 272558000337 motif 1; other site 272558000338 active site 272558000339 motif 2; other site 272558000340 motif 3; other site 272558000341 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272558000342 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272558000343 putative active site [active] 272558000344 putative NTP binding site [chemical binding]; other site 272558000345 putative nucleic acid binding site [nucleotide binding]; other site 272558000346 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272558000347 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 272558000348 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 272558000349 UvrB/uvrC motif; Region: UVR; pfam02151 272558000350 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 272558000351 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 272558000352 ADP binding site [chemical binding]; other site 272558000353 phosphagen binding site; other site 272558000354 substrate specificity loop; other site 272558000355 Clp protease ATP binding subunit; Region: clpC; CHL00095 272558000356 Clp amino terminal domain; Region: Clp_N; pfam02861 272558000357 Clp amino terminal domain; Region: Clp_N; pfam02861 272558000358 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 272558000359 Walker A motif; other site 272558000360 ATP binding site [chemical binding]; other site 272558000361 Walker B motif; other site 272558000362 arginine finger; other site 272558000363 UvrB/uvrC motif; Region: UVR; pfam02151 272558000364 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 272558000365 Walker A motif; other site 272558000366 ATP binding site [chemical binding]; other site 272558000367 Walker B motif; other site 272558000368 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272558000369 DNA repair protein RadA; Provisional; Region: PRK11823 272558000370 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 272558000371 Walker A motif/ATP binding site; other site 272558000372 ATP binding site [chemical binding]; other site 272558000373 Walker B motif; other site 272558000374 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272558000375 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 272558000376 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272558000377 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 272558000378 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 272558000379 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 272558000380 putative active site [active] 272558000381 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272558000382 substrate binding site; other site 272558000383 dimer interface; other site 272558000384 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 272558000385 homotrimer interaction site [polypeptide binding]; other site 272558000386 zinc binding site [ion binding]; other site 272558000387 CDP-binding sites; other site 272558000388 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272558000389 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272558000390 active site 272558000391 HIGH motif; other site 272558000392 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272558000393 active site 272558000394 KMSKS motif; other site 272558000395 serine O-acetyltransferase; Region: cysE; TIGR01172 272558000396 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 272558000397 trimer interface [polypeptide binding]; other site 272558000398 active site 272558000399 substrate binding site [chemical binding]; other site 272558000400 CoA binding site [chemical binding]; other site 272558000401 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272558000402 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272558000403 active site 272558000404 HIGH motif; other site 272558000405 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272558000406 KMSKS motif; other site 272558000407 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 272558000408 tRNA binding surface [nucleotide binding]; other site 272558000409 anticodon binding site; other site 272558000410 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 272558000411 active site 272558000412 metal binding site [ion binding]; metal-binding site 272558000413 dimerization interface [polypeptide binding]; other site 272558000414 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 272558000415 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272558000416 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272558000417 YacP-like NYN domain; Region: NYN_YacP; cl01491 272558000418 RNA polymerase factor sigma-70; Validated; Region: PRK08295 272558000419 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558000420 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558000421 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 272558000422 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 272558000423 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 272558000424 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272558000425 putative homodimer interface [polypeptide binding]; other site 272558000426 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272558000427 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 272558000428 23S rRNA interface [nucleotide binding]; other site 272558000429 L7/L12 interface [polypeptide binding]; other site 272558000430 putative thiostrepton binding site; other site 272558000431 L25 interface [polypeptide binding]; other site 272558000432 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 272558000433 mRNA/rRNA interface [nucleotide binding]; other site 272558000434 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 272558000435 23S rRNA interface [nucleotide binding]; other site 272558000436 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272558000437 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 272558000438 core dimer interface [polypeptide binding]; other site 272558000439 peripheral dimer interface [polypeptide binding]; other site 272558000440 L10 interface [polypeptide binding]; other site 272558000441 L11 interface [polypeptide binding]; other site 272558000442 putative EF-Tu interaction site [polypeptide binding]; other site 272558000443 putative EF-G interaction site [polypeptide binding]; other site 272558000444 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558000445 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558000446 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 272558000447 S-adenosylmethionine binding site [chemical binding]; other site 272558000448 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 272558000449 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 272558000450 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 272558000451 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 272558000452 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 272558000453 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 272558000454 RPB1 interaction site [polypeptide binding]; other site 272558000455 RPB10 interaction site [polypeptide binding]; other site 272558000456 RPB11 interaction site [polypeptide binding]; other site 272558000457 RPB3 interaction site [polypeptide binding]; other site 272558000458 RPB12 interaction site [polypeptide binding]; other site 272558000459 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 272558000460 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272558000461 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 272558000462 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272558000463 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272558000464 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272558000465 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 272558000466 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272558000467 G-loop; other site 272558000468 DNA binding site [nucleotide binding] 272558000469 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 272558000470 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 272558000471 S17 interaction site [polypeptide binding]; other site 272558000472 S8 interaction site; other site 272558000473 16S rRNA interaction site [nucleotide binding]; other site 272558000474 streptomycin interaction site [chemical binding]; other site 272558000475 23S rRNA interaction site [nucleotide binding]; other site 272558000476 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272558000477 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 272558000478 elongation factor G; Reviewed; Region: PRK00007 272558000479 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 272558000480 G1 box; other site 272558000481 putative GEF interaction site [polypeptide binding]; other site 272558000482 GTP/Mg2+ binding site [chemical binding]; other site 272558000483 Switch I region; other site 272558000484 G2 box; other site 272558000485 G3 box; other site 272558000486 Switch II region; other site 272558000487 G4 box; other site 272558000488 G5 box; other site 272558000489 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 272558000490 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 272558000491 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 272558000492 elongation factor Tu; Reviewed; Region: PRK00049 272558000493 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 272558000494 G1 box; other site 272558000495 GEF interaction site [polypeptide binding]; other site 272558000496 GTP/Mg2+ binding site [chemical binding]; other site 272558000497 Switch I region; other site 272558000498 G2 box; other site 272558000499 G3 box; other site 272558000500 Switch II region; other site 272558000501 G4 box; other site 272558000502 G5 box; other site 272558000503 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 272558000504 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 272558000505 Antibiotic Binding Site [chemical binding]; other site 272558000506 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 272558000507 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 272558000508 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 272558000509 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 272558000510 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272558000511 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272558000512 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272558000513 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 272558000514 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 272558000515 putative translocon binding site; other site 272558000516 protein-rRNA interface [nucleotide binding]; other site 272558000517 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 272558000518 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 272558000519 G-X-X-G motif; other site 272558000520 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272558000521 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 272558000522 23S rRNA interface [nucleotide binding]; other site 272558000523 5S rRNA interface [nucleotide binding]; other site 272558000524 putative antibiotic binding site [chemical binding]; other site 272558000525 L25 interface [polypeptide binding]; other site 272558000526 L27 interface [polypeptide binding]; other site 272558000527 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 272558000528 23S rRNA interface [nucleotide binding]; other site 272558000529 putative translocon interaction site; other site 272558000530 signal recognition particle (SRP54) interaction site; other site 272558000531 L23 interface [polypeptide binding]; other site 272558000532 trigger factor interaction site; other site 272558000533 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 272558000534 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 272558000535 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 272558000536 KOW motif; Region: KOW; cl00354 272558000537 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272558000538 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272558000539 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272558000540 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 272558000541 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 272558000542 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272558000543 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272558000544 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272558000545 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 272558000546 5S rRNA interface [nucleotide binding]; other site 272558000547 L27 interface [polypeptide binding]; other site 272558000548 23S rRNA interface [nucleotide binding]; other site 272558000549 L5 interface [polypeptide binding]; other site 272558000550 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 272558000551 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272558000552 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272558000553 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 272558000554 23S rRNA binding site [nucleotide binding]; other site 272558000555 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 272558000556 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272558000557 SecY translocase; Region: SecY; pfam00344 272558000558 adenylate kinase; Reviewed; Region: adk; PRK00279 272558000559 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 272558000560 AMP-binding site [chemical binding]; other site 272558000561 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272558000562 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 272558000563 active site 272558000564 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 272558000565 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 272558000566 rRNA binding site [nucleotide binding]; other site 272558000567 predicted 30S ribosome binding site; other site 272558000568 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 272558000569 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 272558000570 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 272558000571 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 272558000572 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 272558000573 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272558000574 alphaNTD homodimer interface [polypeptide binding]; other site 272558000575 alphaNTD - beta interaction site [polypeptide binding]; other site 272558000576 alphaNTD - beta' interaction site [polypeptide binding]; other site 272558000577 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 272558000578 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 272558000579 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 272558000580 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 272558000581 Walker A/P-loop; other site 272558000582 ATP binding site [chemical binding]; other site 272558000583 Q-loop/lid; other site 272558000584 ABC transporter signature motif; other site 272558000585 Walker B; other site 272558000586 D-loop; other site 272558000587 H-loop/switch region; other site 272558000588 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 272558000589 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 272558000590 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 272558000591 Walker A/P-loop; other site 272558000592 ATP binding site [chemical binding]; other site 272558000593 Q-loop/lid; other site 272558000594 ABC transporter signature motif; other site 272558000595 Walker B; other site 272558000596 D-loop; other site 272558000597 H-loop/switch region; other site 272558000598 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 272558000599 Cobalt transport protein; Region: CbiQ; cl00463 272558000600 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272558000601 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 272558000602 dimerization interface 3.5A [polypeptide binding]; other site 272558000603 active site 272558000604 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 272558000605 23S rRNA interface [nucleotide binding]; other site 272558000606 L3 interface [polypeptide binding]; other site 272558000607 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 272558000608 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272558000609 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 272558000610 substrate binding pocket [chemical binding]; other site 272558000611 membrane-bound complex binding site; other site 272558000612 hinge residues; other site 272558000613 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272558000614 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 272558000615 dimer interface [polypeptide binding]; other site 272558000616 conserved gate region; other site 272558000617 putative PBP binding loops; other site 272558000618 ABC-ATPase subunit interface; other site 272558000619 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272558000620 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 272558000621 Walker A/P-loop; other site 272558000622 ATP binding site [chemical binding]; other site 272558000623 Q-loop/lid; other site 272558000624 ABC transporter signature motif; other site 272558000625 Walker B; other site 272558000626 D-loop; other site 272558000627 H-loop/switch region; other site 272558000628 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 272558000629 Domain of unknown function (DUF3476); Region: DUF3476; pfam11962 272558000630 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558000631 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 272558000632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000633 Walker A/P-loop; other site 272558000634 ATP binding site [chemical binding]; other site 272558000635 Q-loop/lid; other site 272558000636 ABC transporter signature motif; other site 272558000637 Walker B; other site 272558000638 D-loop; other site 272558000639 H-loop/switch region; other site 272558000640 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 272558000641 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272558000642 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272558000643 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 272558000644 NAD binding site [chemical binding]; other site 272558000645 sugar binding site [chemical binding]; other site 272558000646 divalent metal binding site [ion binding]; other site 272558000647 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558000648 dimer interface [polypeptide binding]; other site 272558000649 hypothetical protein; Provisional; Region: PRK08204 272558000650 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 272558000651 active site 272558000652 DinB superfamily; Region: DinB_2; cl00986 272558000653 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272558000654 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 272558000655 putative NAD(P) binding site [chemical binding]; other site 272558000656 catalytic Zn binding site [ion binding]; other site 272558000657 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272558000658 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 272558000659 putative NAD(P) binding site [chemical binding]; other site 272558000660 catalytic Zn binding site [ion binding]; other site 272558000661 structural Zn binding site [ion binding]; other site 272558000662 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272558000663 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 272558000664 P-loop; other site 272558000665 active site 272558000666 phosphorylation site [posttranslational modification] 272558000667 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 272558000668 active site 272558000669 phosphorylation site [posttranslational modification] 272558000670 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272558000671 PRD domain; Region: PRD; cl15445 272558000672 PRD domain; Region: PRD; cl15445 272558000673 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 272558000674 P-loop; other site 272558000675 active site 272558000676 phosphorylation site [posttranslational modification] 272558000677 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 272558000678 active site 272558000679 phosphorylation site [posttranslational modification] 272558000680 PaaX-like protein; Region: PaaX; pfam07848 272558000681 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 272558000682 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 272558000683 AMP-binding enzyme; Region: AMP-binding; cl15778 272558000684 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 272558000685 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 272558000686 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 272558000687 Phenylacetic acid degradation B; Region: PaaB; cl01371 272558000688 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 272558000689 Domain of unknown function DUF59; Region: DUF59; cl00941 272558000690 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 272558000691 EthD protein; Region: EthD; cl06234 272558000692 enoyl-CoA hydratase; Provisional; Region: PRK05862 272558000693 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 272558000694 substrate binding site [chemical binding]; other site 272558000695 oxyanion hole (OAH) forming residues; other site 272558000696 trimer interface [polypeptide binding]; other site 272558000697 enoyl-CoA hydratase; Provisional; Region: PRK08140 272558000698 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 272558000699 substrate binding site [chemical binding]; other site 272558000700 oxyanion hole (OAH) forming residues; other site 272558000701 trimer interface [polypeptide binding]; other site 272558000702 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272558000703 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558000704 NAD(P) binding site [chemical binding]; other site 272558000705 catalytic residues [active] 272558000706 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 272558000707 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 272558000708 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272558000709 putative acyltransferase; Provisional; Region: PRK05790 272558000710 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 272558000711 dimer interface [polypeptide binding]; other site 272558000712 active site 272558000713 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 272558000714 CoenzymeA binding site [chemical binding]; other site 272558000715 subunit interaction site [polypeptide binding]; other site 272558000716 PHB binding site; other site 272558000717 enoyl-CoA hydratase; Provisional; Region: PRK07657 272558000718 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 272558000719 substrate binding site [chemical binding]; other site 272558000720 oxyanion hole (OAH) forming residues; other site 272558000721 trimer interface [polypeptide binding]; other site 272558000722 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 272558000723 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 272558000724 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 272558000725 FMN binding site [chemical binding]; other site 272558000726 substrate binding site [chemical binding]; other site 272558000727 putative catalytic residue [active] 272558000728 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272558000729 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 272558000730 trimer interface [polypeptide binding]; other site 272558000731 putative metal binding site [ion binding]; other site 272558000732 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272558000733 Helix-turn-helix domains; Region: HTH; cl00088 272558000734 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 272558000735 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 272558000736 TPP-binding site [chemical binding]; other site 272558000737 tetramer interface [polypeptide binding]; other site 272558000738 heterodimer interface [polypeptide binding]; other site 272558000739 phosphorylation loop region [posttranslational modification] 272558000740 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272558000741 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 272558000742 alpha subunit interface [polypeptide binding]; other site 272558000743 TPP binding site [chemical binding]; other site 272558000744 heterodimer interface [polypeptide binding]; other site 272558000745 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558000746 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272558000747 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 272558000748 E3 interaction surface; other site 272558000749 lipoyl attachment site [posttranslational modification]; other site 272558000750 e3 binding domain; Region: E3_binding; pfam02817 272558000751 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558000752 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 272558000753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558000754 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558000755 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 272558000756 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272558000757 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558000758 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 272558000759 NAD binding site [chemical binding]; other site 272558000760 Phe binding site; other site 272558000761 L-lactate permease; Region: Lactate_perm; cl00701 272558000762 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272558000763 Helix-turn-helix domains; Region: HTH; cl00088 272558000764 PRD domain; Region: PRD; cl15445 272558000765 PRD domain; Region: PRD; cl15445 272558000766 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 272558000767 P-loop; other site 272558000768 active site 272558000769 phosphorylation site [posttranslational modification] 272558000770 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 272558000771 active site 272558000772 phosphorylation site [posttranslational modification] 272558000773 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 272558000774 active site 272558000775 phosphorylation site [posttranslational modification] 272558000776 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 272558000777 P-loop; other site 272558000778 active site 272558000779 phosphorylation site [posttranslational modification] 272558000780 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272558000781 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272558000782 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272558000783 putative active site [active] 272558000784 putative NTP binding site [chemical binding]; other site 272558000785 putative nucleic acid binding site [nucleotide binding]; other site 272558000786 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272558000787 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 272558000788 active site 272558000789 substrate binding pocket [chemical binding]; other site 272558000790 homodimer interaction site [polypeptide binding]; other site 272558000791 Creatinine amidohydrolase; Region: Creatininase; cl00618 272558000792 hypothetical protein; Provisional; Region: PRK02947 272558000793 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 272558000794 putative active site [active] 272558000795 Family of unknown function (DUF438); Region: DUF438; pfam04282 272558000796 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; cl00047 272558000797 YwiC-like protein; Region: YwiC; pfam14256 272558000798 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 272558000799 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 272558000800 ligand binding site [chemical binding]; other site 272558000801 flexible hinge region; other site 272558000802 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 272558000803 putative switch regulator; other site 272558000804 non-specific DNA interactions [nucleotide binding]; other site 272558000805 DNA binding site [nucleotide binding] 272558000806 sequence specific DNA binding site [nucleotide binding]; other site 272558000807 putative cAMP binding site [chemical binding]; other site 272558000808 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 272558000809 MFS_1 like family; Region: MFS_1_like; pfam12832 272558000810 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 272558000811 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 272558000812 Glycosyl hydrolase family 81; Region: Glyco_hydro_81; cl02310 272558000813 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 272558000814 metal binding site [ion binding]; metal-binding site 272558000815 ligand binding site [chemical binding]; other site 272558000816 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 272558000817 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558000818 putative substrate translocation pore; other site 272558000819 Protein of unknown function (DUF2521); Region: DUF2521; pfam10730 272558000820 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 272558000821 active site 272558000822 metal binding site [ion binding]; metal-binding site 272558000823 Domain of unknown function DUF59; Region: DUF59; cl00941 272558000824 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 272558000825 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 272558000826 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272558000827 Putative catalytic NodB homology domain of Bacillus subtilis putative polysaccharide deacetylase PdaB, and its bacterial homologs; Region: CE4_BsPdaB_like; cd10949 272558000828 NodB motif; other site 272558000829 putative active site [active] 272558000830 putative catalytic site [active] 272558000831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558000832 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558000833 Haemolysin XhlA; Region: XhlA; pfam10779 272558000834 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 272558000835 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 272558000836 Walker A/P-loop; other site 272558000837 ATP binding site [chemical binding]; other site 272558000838 Q-loop/lid; other site 272558000839 ABC transporter signature motif; other site 272558000840 Walker B; other site 272558000841 D-loop; other site 272558000842 H-loop/switch region; other site 272558000843 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 272558000844 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 272558000845 Walker A/P-loop; other site 272558000846 ATP binding site [chemical binding]; other site 272558000847 Q-loop/lid; other site 272558000848 ABC transporter signature motif; other site 272558000849 Walker B; other site 272558000850 D-loop; other site 272558000851 H-loop/switch region; other site 272558000852 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 272558000853 TM-ABC transporter signature motif; other site 272558000854 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 272558000855 TM-ABC transporter signature motif; other site 272558000856 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 272558000857 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 272558000858 putative ligand binding site [chemical binding]; other site 272558000859 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 272558000860 alpha-gamma subunit interface [polypeptide binding]; other site 272558000861 beta-gamma subunit interface [polypeptide binding]; other site 272558000862 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 272558000863 gamma-beta subunit interface [polypeptide binding]; other site 272558000864 alpha-beta subunit interface [polypeptide binding]; other site 272558000865 urease subunit alpha; Reviewed; Region: ureC; PRK13207 272558000866 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 272558000867 subunit interactions [polypeptide binding]; other site 272558000868 active site 272558000869 flap region; other site 272558000870 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 272558000871 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 272558000872 dimer interface [polypeptide binding]; other site 272558000873 catalytic residues [active] 272558000874 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 272558000875 UreF; Region: UreF; pfam01730 272558000876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000878 G4 box; other site 272558000879 G5 box; other site 272558000880 UreD urease accessory protein; Region: UreD; cl00530 272558000881 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 272558000882 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272558000883 metal binding site [ion binding]; metal-binding site 272558000884 putative transposase; Provisional; Region: PRK09857 272558000885 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 272558000886 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 272558000887 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558000888 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 272558000889 DNA binding residues [nucleotide binding] 272558000890 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 272558000891 Anti-sigma-K factor rskA; Region: RskA; cl15366 272558000892 Uncharacterized conserved protein [Function unknown]; Region: COG1624 272558000893 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272558000894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 272558000895 YbbR-like protein; Region: YbbR; pfam07949 272558000896 YbbR-like protein; Region: YbbR; pfam07949 272558000897 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 272558000898 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 272558000899 active site 272558000900 substrate binding site [chemical binding]; other site 272558000901 metal binding site [ion binding]; metal-binding site 272558000902 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 272558000903 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 272558000904 glutaminase active site [active] 272558000905 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 272558000906 dimer interface [polypeptide binding]; other site 272558000907 active site 272558000908 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 272558000909 dimer interface [polypeptide binding]; other site 272558000910 active site 272558000911 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558000912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558000913 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558000914 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558000915 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 272558000916 active site 272558000917 phosphorylation site [posttranslational modification] 272558000918 intermolecular recognition site; other site 272558000919 dimerization interface [polypeptide binding]; other site 272558000920 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 272558000921 DNA binding site [nucleotide binding] 272558000922 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558000923 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 272558000924 ATP binding site [chemical binding]; other site 272558000925 Mg2+ binding site [ion binding]; other site 272558000926 G-X-G motif; other site 272558000927 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558000928 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 272558000929 Walker A/P-loop; other site 272558000930 ATP binding site [chemical binding]; other site 272558000931 Q-loop/lid; other site 272558000932 ABC transporter signature motif; other site 272558000933 Walker B; other site 272558000934 D-loop; other site 272558000935 H-loop/switch region; other site 272558000936 Transposase domain (DUF772); Region: DUF772; cl12084 272558000937 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558000938 FtsX-like permease family; Region: FtsX; pfam02687 272558000939 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558000940 DinB superfamily; Region: DinB_2; pfam12867 272558000941 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 272558000942 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 272558000943 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 272558000944 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 272558000945 Walker A/P-loop; other site 272558000946 ATP binding site [chemical binding]; other site 272558000947 Q-loop/lid; other site 272558000948 ABC transporter signature motif; other site 272558000949 Walker B; other site 272558000950 D-loop; other site 272558000951 H-loop/switch region; other site 272558000952 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 272558000953 active site 272558000954 metal binding site [ion binding]; metal-binding site 272558000955 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272558000956 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272558000957 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 272558000958 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 272558000959 putative dimer interface [polypeptide binding]; other site 272558000960 active site pocket [active] 272558000961 putative cataytic base [active] 272558000962 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 272558000963 catalytic core [active] 272558000964 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558000965 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 272558000966 Walker A/P-loop; other site 272558000967 ATP binding site [chemical binding]; other site 272558000968 Q-loop/lid; other site 272558000969 ABC transporter signature motif; other site 272558000970 Walker B; other site 272558000971 D-loop; other site 272558000972 H-loop/switch region; other site 272558000973 FtsX-like permease family; Region: FtsX; cl15850 272558000974 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558000975 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 272558000976 active site 272558000977 phosphorylation site [posttranslational modification] 272558000978 intermolecular recognition site; other site 272558000979 dimerization interface [polypeptide binding]; other site 272558000980 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 272558000981 DNA binding site [nucleotide binding] 272558000982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558000983 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 272558000984 ATP binding site [chemical binding]; other site 272558000985 Mg2+ binding site [ion binding]; other site 272558000986 G-X-G motif; other site 272558000987 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558000988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558000989 Walker A/P-loop; other site 272558000990 ATP binding site [chemical binding]; other site 272558000991 Q-loop/lid; other site 272558000992 ABC transporter signature motif; other site 272558000993 Walker B; other site 272558000994 D-loop; other site 272558000995 H-loop/switch region; other site 272558000996 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558000997 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 272558000998 putative DNA binding site [nucleotide binding]; other site 272558000999 dimerization interface [polypeptide binding]; other site 272558001000 putative Zn2+ binding site [ion binding]; other site 272558001001 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558001002 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 272558001003 putative substrate translocation pore; other site 272558001004 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 272558001005 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 272558001006 active site turn [active] 272558001007 phosphorylation site [posttranslational modification] 272558001008 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558001009 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 272558001010 HPr interaction site; other site 272558001011 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272558001012 active site 272558001013 phosphorylation site [posttranslational modification] 272558001014 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272558001015 CAT RNA binding domain; Region: CAT_RBD; cl03904 272558001016 PRD domain; Region: PRD; cl15445 272558001017 PRD domain; Region: PRD; cl15445 272558001018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001019 Coenzyme A binding pocket [chemical binding]; other site 272558001020 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558001021 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 272558001022 putative FMN binding site [chemical binding]; other site 272558001023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558001024 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 272558001025 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 272558001026 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 272558001027 NADP binding site [chemical binding]; other site 272558001028 Predicted transcriptional regulator [Transcription]; Region: COG1959 272558001029 Helix-turn-helix domains; Region: HTH; cl00088 272558001030 Helix-turn-helix domains; Region: HTH; cl00088 272558001031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558001032 MULE transposase domain; Region: MULE; pfam10551 272558001033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001034 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 272558001035 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272558001036 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 272558001037 putative NAD(P) binding site [chemical binding]; other site 272558001038 active site 272558001039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558001040 Helix-turn-helix domains; Region: HTH; cl00088 272558001041 DinB superfamily; Region: DinB_2; cl00986 272558001042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001043 active site 272558001044 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 272558001045 Phosphotransferase enzyme family; Region: APH; pfam01636 272558001046 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 272558001047 active site 272558001048 substrate binding site [chemical binding]; other site 272558001049 ATP binding site [chemical binding]; other site 272558001050 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cd09657 272558001051 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 272558001052 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 272558001053 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 272558001054 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09656 272558001055 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cd09682 272558001056 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09654 272558001057 CRISPR/Cas system-associated RAMP superfamily protein Cmr6; Region: Cmr6_III-B; cd09661 272558001058 Helix-turn-helix domains; Region: HTH; cl00088 272558001059 putative transposase OrfB; Reviewed; Region: PHA02517 272558001060 HTH-like domain; Region: HTH_21; pfam13276 272558001061 Integrase core domain; Region: rve; cl01316 272558001062 Integrase core domain; Region: rve_3; cl15866 272558001063 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 272558001064 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 272558001065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001066 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 272558001067 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 272558001068 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 272558001069 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 272558001070 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 272558001071 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272558001072 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 272558001073 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 272558001074 similar to hypothetical protein 272558001075 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 272558001076 non-specific DNA binding site [nucleotide binding]; other site 272558001077 salt bridge; other site 272558001078 sequence-specific DNA binding site [nucleotide binding]; other site 272558001079 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 272558001080 non-specific DNA binding site [nucleotide binding]; other site 272558001081 salt bridge; other site 272558001082 sequence-specific DNA binding site [nucleotide binding]; other site 272558001083 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_2; cd08498 272558001084 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558001085 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272558001086 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 272558001087 dimer interface [polypeptide binding]; other site 272558001088 conserved gate region; other site 272558001089 putative PBP binding loops; other site 272558001090 ABC-ATPase subunit interface; other site 272558001091 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272558001092 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 272558001093 dimer interface [polypeptide binding]; other site 272558001094 conserved gate region; other site 272558001095 putative PBP binding loops; other site 272558001096 ABC-ATPase subunit interface; other site 272558001097 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272558001098 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 272558001099 Walker A/P-loop; other site 272558001100 ATP binding site [chemical binding]; other site 272558001101 Q-loop/lid; other site 272558001102 ABC transporter signature motif; other site 272558001103 Walker B; other site 272558001104 D-loop; other site 272558001105 H-loop/switch region; other site 272558001106 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558001107 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 272558001108 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 272558001109 Walker A/P-loop; other site 272558001110 ATP binding site [chemical binding]; other site 272558001111 Q-loop/lid; other site 272558001112 ABC transporter signature motif; other site 272558001113 Walker B; other site 272558001114 D-loop; other site 272558001115 H-loop/switch region; other site 272558001116 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558001117 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 272558001118 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 272558001119 metal binding site [ion binding]; metal-binding site 272558001120 dimer interface [polypeptide binding]; other site 272558001121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558001122 Helix-turn-helix domains; Region: HTH; cl00088 272558001123 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272558001124 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 272558001125 S-adenosylmethionine binding site [chemical binding]; other site 272558001126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558001127 MULE transposase domain; Region: MULE; pfam10551 272558001128 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558001129 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558001130 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558001131 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 272558001132 active site 272558001133 zinc binding site [ion binding]; other site 272558001134 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 272558001135 Collagen binding domain; Region: Collagen_bind; pfam05737 272558001136 Collagen binding domain; Region: Collagen_bind; pfam05737 272558001137 Collagen binding domain; Region: Collagen_bind; pfam05737 272558001138 Collagen binding domain; Region: Collagen_bind; pfam05737 272558001139 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 272558001140 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 272558001141 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 272558001142 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 272558001143 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 272558001144 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_5; cd06166 272558001145 active site 272558001146 catalytic site [active] 272558001147 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272558001148 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 272558001149 NADP binding site [chemical binding]; other site 272558001150 dimer interface [polypeptide binding]; other site 272558001151 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 272558001152 non-specific DNA binding site [nucleotide binding]; other site 272558001153 salt bridge; other site 272558001154 sequence-specific DNA binding site [nucleotide binding]; other site 272558001155 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272558001156 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001157 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272558001158 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 272558001159 dimer interface [polypeptide binding]; other site 272558001160 [2Fe-2S] cluster binding site [ion binding]; other site 272558001161 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272558001162 trimer interface [polypeptide binding]; other site 272558001163 active site 272558001164 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272558001165 trimerization site [polypeptide binding]; other site 272558001166 active site 272558001167 Cupin domain; Region: Cupin_2; cl09118 272558001168 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 272558001169 Peptidase M3-like family, a zincin metallopeptidase, includes M3 and M32 families; Region: M3_like; cd06258 272558001170 active site 272558001171 Zn binding site [ion binding]; other site 272558001172 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558001173 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 272558001174 active site 272558001175 phosphorylation site [posttranslational modification] 272558001176 intermolecular recognition site; other site 272558001177 dimerization interface [polypeptide binding]; other site 272558001178 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 272558001179 DNA binding site [nucleotide binding] 272558001180 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 272558001181 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 272558001182 dimer interface [polypeptide binding]; other site 272558001183 phosphorylation site [posttranslational modification] 272558001184 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 272558001185 ATP binding site [chemical binding]; other site 272558001186 Mg2+ binding site [ion binding]; other site 272558001187 G-X-G motif; other site 272558001188 Predicted membrane protein [Function unknown]; Region: COG3212 272558001189 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272558001190 Predicted membrane protein [Function unknown]; Region: COG3212 272558001191 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272558001192 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272558001193 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 272558001194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001195 Walker A/P-loop; other site 272558001196 ATP binding site [chemical binding]; other site 272558001197 Q-loop/lid; other site 272558001198 ABC transporter signature motif; other site 272558001199 Walker B; other site 272558001200 D-loop; other site 272558001201 H-loop/switch region; other site 272558001202 Cupin domain; Region: Cupin_2; cl09118 272558001203 Putative cyclase; Region: Cyclase; cl00814 272558001204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558001205 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558001206 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 272558001207 S-adenosylmethionine binding site [chemical binding]; other site 272558001208 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 272558001209 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 272558001210 putative active site [active] 272558001211 putative substrate binding site [chemical binding]; other site 272558001212 ATP binding site [chemical binding]; other site 272558001213 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558001214 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 272558001215 Walker A/P-loop; other site 272558001216 ATP binding site [chemical binding]; other site 272558001217 Q-loop/lid; other site 272558001218 ABC transporter signature motif; other site 272558001219 Walker B; other site 272558001220 D-loop; other site 272558001221 H-loop/switch region; other site 272558001222 Predicted transcriptional regulators [Transcription]; Region: COG1725 272558001223 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558001224 DNA-binding site [nucleotide binding]; DNA binding site 272558001225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001226 Coenzyme A binding pocket [chemical binding]; other site 272558001227 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 272558001228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558001229 MULE transposase domain; Region: MULE; pfam10551 272558001230 EamA-like transporter family; Region: EamA; cl01037 272558001231 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272558001232 EamA-like transporter family; Region: EamA; cl01037 272558001233 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 272558001234 putative DNA binding site [nucleotide binding]; other site 272558001235 dimerization interface [polypeptide binding]; other site 272558001236 putative Zn2+ binding site [ion binding]; other site 272558001237 Flavin Reductases; Region: FlaRed; cl00801 272558001238 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272558001239 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 272558001240 DNA binding site [nucleotide binding] 272558001241 active site 272558001242 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 272558001243 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 272558001244 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001245 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001246 Necrosis inducing protein (NPP1); Region: NPP1; pfam05630 272558001247 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 272558001248 EamA-like transporter family; Region: EamA; cl01037 272558001249 EamA-like transporter family; Region: EamA; cl01037 272558001250 sensory histidine kinase DcuS; Provisional; Region: PRK11086 272558001251 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 272558001252 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 272558001253 ATP binding site [chemical binding]; other site 272558001254 Mg2+ binding site [ion binding]; other site 272558001255 G-X-G motif; other site 272558001256 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 272558001257 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 272558001258 active site 272558001259 phosphorylation site [posttranslational modification] 272558001260 intermolecular recognition site; other site 272558001261 dimerization interface [polypeptide binding]; other site 272558001262 Helix-turn-helix domains; Region: HTH; cl00088 272558001263 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272558001264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001265 NAD(P) binding pocket [chemical binding]; other site 272558001266 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 272558001267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001268 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558001269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001270 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272558001271 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 272558001272 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 272558001273 dimer interface [polypeptide binding]; other site 272558001274 FMN binding site [chemical binding]; other site 272558001275 Helix-turn-helix domains; Region: HTH; cl00088 272558001276 hypothetical protein; Validated; Region: PRK07668 272558001277 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 272558001278 DNA binding residues [nucleotide binding] 272558001279 dimer interface [polypeptide binding]; other site 272558001280 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 272558001281 50S ribosomal protein L11; Region: L11_bact; TIGR01632 272558001282 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 272558001283 23S rRNA interface [nucleotide binding]; other site 272558001284 L7/L12 interface [polypeptide binding]; other site 272558001285 putative thiostrepton binding site; other site 272558001286 L25 interface [polypeptide binding]; other site 272558001287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001288 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272558001289 NAD(P) binding site [chemical binding]; other site 272558001290 active site 272558001291 Predicted transcriptional regulator [Transcription]; Region: COG2378 272558001292 Helix-turn-helix domains; Region: HTH; cl00088 272558001293 WYL domain; Region: WYL; cl14852 272558001294 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272558001295 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 272558001296 active site 272558001297 catalytic site [active] 272558001298 alpha-amylase; Reviewed; Region: malS; PRK09505 272558001299 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 272558001300 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 272558001301 Sulfate transporter family; Region: Sulfate_transp; cl15842 272558001302 Sulfate transporter family; Region: Sulfate_transp; cl15842 272558001303 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 272558001304 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 272558001305 Ligand Binding Site [chemical binding]; other site 272558001306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558001307 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558001308 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 272558001309 active site 272558001310 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 272558001311 S-adenosylmethionine binding site [chemical binding]; other site 272558001312 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272558001313 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558001314 DNA-binding site [nucleotide binding]; DNA binding site 272558001315 UTRA domain; Region: UTRA; cl01230 272558001316 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 272558001317 active site 272558001318 trimer interface [polypeptide binding]; other site 272558001319 allosteric site; other site 272558001320 active site lid [active] 272558001321 hexamer (dimer of trimers) interface [polypeptide binding]; other site 272558001322 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 272558001323 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 272558001324 active site 272558001325 dimer interface [polypeptide binding]; other site 272558001326 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 272558001327 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558001328 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 272558001329 active site turn [active] 272558001330 phosphorylation site [posttranslational modification] 272558001331 Helix-turn-helix domains; Region: HTH; cl00088 272558001332 Uncharacterized conserved protein [Function unknown]; Region: COG2128 272558001333 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558001334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001335 Coenzyme A binding pocket [chemical binding]; other site 272558001336 Cation efflux family; Region: Cation_efflux; cl00316 272558001337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558001338 Helix-turn-helix domains; Region: HTH; cl00088 272558001339 LysE type translocator; Region: LysE; cl00565 272558001340 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272558001341 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 272558001342 motif II; other site 272558001343 LysE type translocator; Region: LysE; cl00565 272558001344 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 272558001345 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558001346 DNA-binding site [nucleotide binding]; DNA binding site 272558001347 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 272558001348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558001349 homodimer interface [polypeptide binding]; other site 272558001350 catalytic residue [active] 272558001351 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558001352 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558001353 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558001354 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558001355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558001356 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 272558001357 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 272558001358 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 272558001359 THF binding site; other site 272558001360 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 272558001361 substrate binding site [chemical binding]; other site 272558001362 THF binding site; other site 272558001363 zinc-binding site [ion binding]; other site 272558001364 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 272558001365 NMT1-like family; Region: NMT1_2; cl15260 272558001366 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 272558001367 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272558001368 Walker A/P-loop; other site 272558001369 ATP binding site [chemical binding]; other site 272558001370 Q-loop/lid; other site 272558001371 ABC transporter signature motif; other site 272558001372 Walker B; other site 272558001373 D-loop; other site 272558001374 H-loop/switch region; other site 272558001375 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 272558001376 dimer interface [polypeptide binding]; other site 272558001377 conserved gate region; other site 272558001378 ABC-ATPase subunit interface; other site 272558001379 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272558001380 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 272558001381 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558001382 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558001383 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558001384 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 272558001385 Walker A/P-loop; other site 272558001386 ATP binding site [chemical binding]; other site 272558001387 Q-loop/lid; other site 272558001388 ABC transporter signature motif; other site 272558001389 Walker B; other site 272558001390 D-loop; other site 272558001391 H-loop/switch region; other site 272558001392 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558001393 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558001394 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272558001395 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558001396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001397 Walker A/P-loop; other site 272558001398 ATP binding site [chemical binding]; other site 272558001399 Q-loop/lid; other site 272558001400 ABC transporter signature motif; other site 272558001401 Walker B; other site 272558001402 D-loop; other site 272558001403 H-loop/switch region; other site 272558001404 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558001405 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558001406 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 272558001407 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 272558001408 putative active site [active] 272558001409 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558001410 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001411 Walker A/P-loop; other site 272558001412 ATP binding site [chemical binding]; other site 272558001413 Q-loop/lid; other site 272558001414 ABC transporter signature motif; other site 272558001415 Walker B; other site 272558001416 D-loop; other site 272558001417 H-loop/switch region; other site 272558001418 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 272558001419 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 272558001420 active site 272558001421 zinc binding site [ion binding]; other site 272558001422 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 272558001423 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 272558001424 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 272558001425 active site 272558001426 zinc binding site [ion binding]; other site 272558001427 Transposase domain (DUF772); Region: DUF772; cl12084 272558001428 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 272558001429 non-specific DNA binding site [nucleotide binding]; other site 272558001430 salt bridge; other site 272558001431 sequence-specific DNA binding site [nucleotide binding]; other site 272558001432 PilZ domain; Region: PilZ; cl01260 272558001433 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 272558001434 Domain of unknown function DUF20; Region: UPF0118; cl00465 272558001435 Bacitracin resistance protein BacA; Region: BacA; cl00858 272558001436 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 272558001437 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272558001438 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272558001439 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558001440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001441 Coenzyme A binding pocket [chemical binding]; other site 272558001442 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272558001443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001444 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 272558001445 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 272558001446 NMT1-like family; Region: NMT1_2; cl15260 272558001447 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 272558001448 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272558001449 Walker A/P-loop; other site 272558001450 ATP binding site [chemical binding]; other site 272558001451 Q-loop/lid; other site 272558001452 ABC transporter signature motif; other site 272558001453 Walker B; other site 272558001454 D-loop; other site 272558001455 H-loop/switch region; other site 272558001456 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272558001457 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 272558001458 dimer interface [polypeptide binding]; other site 272558001459 conserved gate region; other site 272558001460 ABC-ATPase subunit interface; other site 272558001461 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272558001462 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 272558001463 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558001464 putative substrate translocation pore; other site 272558001465 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272558001466 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 272558001467 motif II; other site 272558001468 CAAX protease self-immunity; Region: Abi; cl00558 272558001469 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272558001470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558001471 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558001472 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 272558001473 active site 272558001474 metal binding site [ion binding]; metal-binding site 272558001475 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272558001476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001477 Coenzyme A binding pocket [chemical binding]; other site 272558001478 Tetratrico peptide repeat; Region: TPR_5; pfam12688 272558001479 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 272558001480 binding surface 272558001481 TPR motif; other site 272558001482 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 272558001483 putative dimer interface [polypeptide binding]; other site 272558001484 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558001485 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 272558001486 dimer interface [polypeptide binding]; other site 272558001487 conserved gate region; other site 272558001488 putative PBP binding loops; other site 272558001489 ABC-ATPase subunit interface; other site 272558001490 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 272558001491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558001493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001494 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558001495 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 272558001496 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 272558001497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001498 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558001499 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558001500 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 272558001501 Membrane transport protein; Region: Mem_trans; cl09117 272558001502 SAF domain; Region: SAF; cl00555 272558001503 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 272558001504 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 272558001505 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272558001506 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272558001507 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 272558001508 active site 272558001509 altronate oxidoreductase; Provisional; Region: PRK03643 272558001510 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272558001511 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272558001512 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272558001513 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272558001514 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272558001515 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 272558001516 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 272558001517 Cupin domain; Region: Cupin_2; cl09118 272558001518 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 272558001519 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558001520 active site 272558001521 motif I; other site 272558001522 motif II; other site 272558001523 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 272558001524 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 272558001525 Restriction endonuclease; Region: Mrr_cat; cl00747 272558001526 shikimate kinase; Reviewed; Region: aroK; PRK00131 272558001527 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 272558001528 ADP binding site [chemical binding]; other site 272558001529 magnesium binding site [ion binding]; other site 272558001530 putative shikimate binding site; other site 272558001531 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 272558001532 Class I ribonucleotide reductase; Region: RNR_I; cd01679 272558001533 active site 272558001534 dimer interface [polypeptide binding]; other site 272558001535 catalytic residues [active] 272558001536 effector binding site; other site 272558001537 R2 peptide binding site; other site 272558001538 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 272558001539 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 272558001540 dimer interface [polypeptide binding]; other site 272558001541 putative radical transfer pathway; other site 272558001542 diiron center [ion binding]; other site 272558001543 tyrosyl radical; other site 272558001544 Predicted acetyltransferase [General function prediction only]; Region: COG3981 272558001545 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 272558001546 heme-binding site [chemical binding]; other site 272558001547 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558001548 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558001549 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 272558001550 classical (c) SDRs; Region: SDR_c; cd05233 272558001551 NAD(P) binding site [chemical binding]; other site 272558001552 active site 272558001553 Helix-turn-helix domains; Region: HTH; cl00088 272558001554 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 272558001555 MgtE intracellular N domain; Region: MgtE_N; cl15244 272558001556 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 272558001557 Divalent cation transporter; Region: MgtE; cl00786 272558001558 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 272558001559 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 272558001560 Walker A/P-loop; other site 272558001561 ATP binding site [chemical binding]; other site 272558001562 Q-loop/lid; other site 272558001563 ABC transporter signature motif; other site 272558001564 Walker B; other site 272558001565 D-loop; other site 272558001566 H-loop/switch region; other site 272558001567 TOBE domain; Region: TOBE_2; cl01440 272558001568 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 272558001569 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 272558001570 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 272558001571 dimer interface [polypeptide binding]; other site 272558001572 conserved gate region; other site 272558001573 putative PBP binding loops; other site 272558001574 ABC-ATPase subunit interface; other site 272558001575 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 272558001576 dimer interface [polypeptide binding]; other site 272558001577 conserved gate region; other site 272558001578 putative PBP binding loops; other site 272558001579 ABC-ATPase subunit interface; other site 272558001580 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 272558001581 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 272558001582 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272558001583 metal binding site [ion binding]; metal-binding site 272558001584 Rhomboid family; Region: Rhomboid; cl11446 272558001585 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272558001586 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 272558001587 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 272558001588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 272558001589 active site 272558001590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272558001591 dimer interface [polypeptide binding]; other site 272558001592 substrate binding site [chemical binding]; other site 272558001593 catalytic residues [active] 272558001594 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 272558001595 PemK-like protein; Region: PemK; cl00995 272558001596 Rsbr N terminal; Region: Rsbr_N; pfam08678 272558001597 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 272558001598 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 272558001599 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 272558001600 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 272558001601 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 272558001602 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 272558001603 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 272558001604 anti sigma factor interaction site; other site 272558001605 regulatory phosphorylation site [posttranslational modification]; other site 272558001606 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 272558001607 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 272558001608 ATP binding site [chemical binding]; other site 272558001609 Mg2+ binding site [ion binding]; other site 272558001610 G-X-G motif; other site 272558001611 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 272558001612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558001613 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558001614 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 272558001615 DNA binding residues [nucleotide binding] 272558001616 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 272558001617 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 272558001618 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 272558001619 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 272558001620 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 272558001621 RNA binding site [nucleotide binding]; other site 272558001622 SprT homologues; Region: SprT; cl01182 272558001623 hypothetical protein; Provisional; Region: PRK04351 272558001624 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272558001625 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272558001626 putative active site [active] 272558001627 putative NTP binding site [chemical binding]; other site 272558001628 putative nucleic acid binding site [nucleotide binding]; other site 272558001629 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272558001630 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 272558001631 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 272558001632 putative active site [active] 272558001633 metal binding site [ion binding]; metal-binding site 272558001634 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272558001635 GAF domain; Region: GAF; cl00853 272558001636 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272558001637 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 272558001638 dimer interface [polypeptide binding]; other site 272558001639 phosphorylation site [posttranslational modification] 272558001640 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 272558001641 ATP binding site [chemical binding]; other site 272558001642 G-X-G motif; other site 272558001643 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272558001644 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 272558001645 active site 272558001646 phosphorylation site [posttranslational modification] 272558001647 intermolecular recognition site; other site 272558001648 dimerization interface [polypeptide binding]; other site 272558001649 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 272558001650 Walker A motif; other site 272558001651 ATP binding site [chemical binding]; other site 272558001652 Walker B motif; other site 272558001653 arginine finger; other site 272558001654 Helix-turn-helix domains; Region: HTH; cl00088 272558001655 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 272558001656 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 272558001657 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558001658 NAD(P) binding site [chemical binding]; other site 272558001659 catalytic residues [active] 272558001660 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272558001661 MgtC family; Region: MgtC; pfam02308 272558001662 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 272558001663 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 272558001664 homodimer interface [polypeptide binding]; other site 272558001665 substrate-cofactor binding pocket; other site 272558001666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558001667 catalytic residue [active] 272558001668 thiamine-monophosphate kinase; Region: thiL; TIGR01379 272558001669 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 272558001670 ATP binding site [chemical binding]; other site 272558001671 dimerization interface [polypeptide binding]; other site 272558001672 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 272558001673 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272558001674 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272558001675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558001676 Coenzyme A binding pocket [chemical binding]; other site 272558001677 UGMP family protein; Validated; Region: PRK09604 272558001678 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272558001679 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 272558001680 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272558001681 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 272558001682 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558001683 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 272558001684 ABC transporter; Region: ABC_tran_2; pfam12848 272558001685 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 272558001686 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 272558001687 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 272558001688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001689 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272558001690 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 272558001691 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 272558001692 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558001693 putative substrate translocation pore; other site 272558001694 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 272558001695 Glycerate kinase family; Region: Gly_kinase; cl00841 272558001696 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 272558001697 metal-binding site [ion binding] 272558001698 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 272558001699 metal-binding site [ion binding] 272558001700 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272558001701 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 272558001702 metal-binding site [ion binding] 272558001703 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272558001704 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558001705 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 272558001706 putative homotetramer interface [polypeptide binding]; other site 272558001707 putative homodimer interface [polypeptide binding]; other site 272558001708 putative allosteric switch controlling residues; other site 272558001709 putative metal binding site [ion binding]; other site 272558001710 putative homodimer-homodimer interface [polypeptide binding]; other site 272558001711 Domain of unknown function (DUF4305); Region: DUF4305; pfam14146 272558001712 CAAX protease self-immunity; Region: Abi; cl00558 272558001713 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 272558001714 oligomerisation interface [polypeptide binding]; other site 272558001715 mobile loop; other site 272558001716 roof hairpin; other site 272558001717 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272558001718 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 272558001719 ring oligomerisation interface [polypeptide binding]; other site 272558001720 ATP/Mg binding site [chemical binding]; other site 272558001721 stacking interactions; other site 272558001722 hinge regions; other site 272558001723 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558001724 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558001725 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 272558001726 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 272558001727 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558001728 catalytic residue [active] 272558001729 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272558001730 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 272558001731 substrate binding site [chemical binding]; other site 272558001732 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 272558001733 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 272558001734 dimer interface [polypeptide binding]; other site 272558001735 conserved gate region; other site 272558001736 putative PBP binding loops; other site 272558001737 ABC-ATPase subunit interface; other site 272558001738 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272558001739 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 272558001740 dimer interface [polypeptide binding]; other site 272558001741 conserved gate region; other site 272558001742 putative PBP binding loops; other site 272558001743 ABC-ATPase subunit interface; other site 272558001744 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 272558001745 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272558001746 Walker A/P-loop; other site 272558001747 ATP binding site [chemical binding]; other site 272558001748 Q-loop/lid; other site 272558001749 ABC transporter signature motif; other site 272558001750 Walker B; other site 272558001751 D-loop; other site 272558001752 H-loop/switch region; other site 272558001753 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558001754 nickel import ATP-binding protein NikE; Region: nickel_nikE; TIGR02769 272558001755 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 272558001756 Walker A/P-loop; other site 272558001757 ATP binding site [chemical binding]; other site 272558001758 Q-loop/lid; other site 272558001759 ABC transporter signature motif; other site 272558001760 Walker B; other site 272558001761 D-loop; other site 272558001762 H-loop/switch region; other site 272558001763 Chromate transporter; Region: Chromate_transp; pfam02417 272558001764 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 272558001765 Chromate transporter; Region: Chromate_transp; pfam02417 272558001766 Helix-turn-helix domains; Region: HTH; cl00088 272558001767 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272558001768 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 272558001769 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558001770 DNA-binding site [nucleotide binding]; DNA binding site 272558001771 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 272558001772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558001773 homodimer interface [polypeptide binding]; other site 272558001774 catalytic residue [active] 272558001775 3-epi-6-deoxocathasterone 23-monooxygenase; Provisional; Region: PLN03141 272558001776 Cytochrome P450; Region: p450; cl12078 272558001777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558001778 Helix-turn-helix domains; Region: HTH; cl00088 272558001779 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558001780 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 272558001781 active site 272558001782 phosphorylation site [posttranslational modification] 272558001783 intermolecular recognition site; other site 272558001784 dimerization interface [polypeptide binding]; other site 272558001785 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 272558001786 DNA binding residues [nucleotide binding] 272558001787 dimerization interface [polypeptide binding]; other site 272558001788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272558001789 Histidine kinase; Region: HisKA_3; pfam07730 272558001790 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 272558001791 ATP binding site [chemical binding]; other site 272558001792 Mg2+ binding site [ion binding]; other site 272558001793 G-X-G motif; other site 272558001794 Predicted membrane protein [Function unknown]; Region: COG2311 272558001795 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558001796 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558001797 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558001798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558001799 DNA-binding site [nucleotide binding]; DNA binding site 272558001800 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272558001801 PRD domain; Region: PRD; cl15445 272558001802 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 272558001803 Protein of unknown function; Region: YhfT; pfam10797 272558001804 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 272558001805 active site 272558001806 substrate binding pocket [chemical binding]; other site 272558001807 homodimer interaction site [polypeptide binding]; other site 272558001808 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 272558001809 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558001810 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 272558001811 dimer interface [polypeptide binding]; other site 272558001812 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 272558001813 active site 272558001814 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272558001815 substrate binding site [chemical binding]; other site 272558001816 catalytic residue [active] 272558001817 putative mutase; Provisional; Region: PRK12383 272558001818 Sulfatase; Region: Sulfatase; cl10460 272558001819 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558001820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558001821 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558001822 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 272558001823 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 272558001824 active site turn [active] 272558001825 phosphorylation site [posttranslational modification] 272558001826 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558001827 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 272558001828 HPr interaction site; other site 272558001829 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272558001830 active site 272558001831 phosphorylation site [posttranslational modification] 272558001832 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272558001833 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272558001834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001835 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 272558001836 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 272558001837 Cation transport protein; Region: TrkH; cl10514 272558001838 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558001839 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 272558001840 Walker A/P-loop; other site 272558001841 ATP binding site [chemical binding]; other site 272558001842 Q-loop/lid; other site 272558001843 ABC transporter signature motif; other site 272558001844 Walker B; other site 272558001845 D-loop; other site 272558001846 H-loop/switch region; other site 272558001847 FtsX-like permease family; Region: FtsX; pfam02687 272558001848 NMT1-like family; Region: NMT1_2; cl15260 272558001849 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272558001850 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558001851 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 272558001852 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272558001853 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 272558001854 MoxR-like ATPases [General function prediction only]; Region: COG0714 272558001855 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 272558001856 Walker A motif; other site 272558001857 ATP binding site [chemical binding]; other site 272558001858 Walker B motif; other site 272558001859 arginine finger; other site 272558001860 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 272558001861 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 272558001862 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 272558001863 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272558001864 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 272558001865 GMP synthase; Reviewed; Region: guaA; PRK00074 272558001866 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 272558001867 AMP/PPi binding site [chemical binding]; other site 272558001868 candidate oxyanion hole; other site 272558001869 catalytic triad [active] 272558001870 potential glutamine specificity residues [chemical binding]; other site 272558001871 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 272558001872 ATP Binding subdomain [chemical binding]; other site 272558001873 Ligand Binding sites [chemical binding]; other site 272558001874 Dimerization subdomain; other site 272558001875 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272558001876 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 272558001877 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558001878 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 272558001879 FAD binding pocket [chemical binding]; other site 272558001880 FAD binding motif [chemical binding]; other site 272558001881 catalytic residues [active] 272558001882 NAD binding pocket [chemical binding]; other site 272558001883 phosphate binding motif [ion binding]; other site 272558001884 beta-alpha-beta structure motif; other site 272558001885 sulfite reductase subunit beta; Provisional; Region: PRK13504 272558001886 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272558001887 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272558001888 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 272558001889 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 272558001890 putative active site [active] 272558001891 putative NTP binding site [chemical binding]; other site 272558001892 putative nucleic acid binding site [nucleotide binding]; other site 272558001893 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 272558001894 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 272558001895 putative substrate translocation pore; other site 272558001896 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 272558001897 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 272558001898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558001899 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272558001900 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 272558001901 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 272558001902 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 272558001903 [2Fe-2S] cluster binding site [ion binding]; other site 272558001904 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 272558001905 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 272558001906 [4Fe-4S] binding site [ion binding]; other site 272558001907 molybdopterin cofactor binding site; other site 272558001908 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 272558001909 molybdopterin cofactor binding site; other site 272558001910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 272558001911 MOSC domain; Region: MOSC; pfam03473 272558001912 3-alpha domain; Region: 3-alpha; pfam03475 272558001913 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 272558001914 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 272558001915 malonyl-CoA binding site [chemical binding]; other site 272558001916 dimer interface [polypeptide binding]; other site 272558001917 active site 272558001918 product binding site; other site 272558001919 Phospholipid methyltransferase; Region: PEMT; cl00763 272558001920 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 272558001921 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558001922 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 272558001923 DNA binding residues [nucleotide binding] 272558001924 hypothetical protein; Provisional; Region: PRK04164 272558001925 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272558001926 NETI protein; Region: NETI; pfam14044 272558001927 AIR carboxylase; Region: AIRC; cl00310 272558001928 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 272558001929 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558001930 adenylosuccinate lyase; Provisional; Region: PRK07492 272558001931 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 272558001932 tetramer interface [polypeptide binding]; other site 272558001933 active site 272558001934 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 272558001935 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 272558001936 ATP binding site [chemical binding]; other site 272558001937 active site 272558001938 substrate binding site [chemical binding]; other site 272558001939 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 272558001940 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 272558001941 putative active site [active] 272558001942 catalytic triad [active] 272558001943 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 272558001944 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 272558001945 dimerization interface [polypeptide binding]; other site 272558001946 ATP binding site [chemical binding]; other site 272558001947 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 272558001948 dimerization interface [polypeptide binding]; other site 272558001949 ATP binding site [chemical binding]; other site 272558001950 amidophosphoribosyltransferase; Provisional; Region: PRK07631 272558001951 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 272558001952 active site 272558001953 tetramer interface [polypeptide binding]; other site 272558001954 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558001955 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558001956 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 272558001957 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 272558001958 dimerization interface [polypeptide binding]; other site 272558001959 putative ATP binding site [chemical binding]; other site 272558001960 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 272558001961 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 272558001962 active site 272558001963 substrate binding site [chemical binding]; other site 272558001964 cosubstrate binding site; other site 272558001965 catalytic site [active] 272558001966 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 272558001967 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 272558001968 purine monophosphate binding site [chemical binding]; other site 272558001969 dimer interface [polypeptide binding]; other site 272558001970 putative catalytic residues [active] 272558001971 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272558001972 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 272558001973 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 272558001974 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 272558001975 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558001976 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 272558001977 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 272558001978 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272558001979 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 272558001980 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 272558001981 active site 272558001982 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 272558001983 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 272558001984 Trp repressor protein; Region: Trp_repressor; cl01121 272558001985 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 272558001986 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 272558001987 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 272558001988 active site 272558001989 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 272558001990 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 272558001991 dimerization interface [polypeptide binding]; other site 272558001992 putative DNA binding site [nucleotide binding]; other site 272558001993 putative Zn2+ binding site [ion binding]; other site 272558001994 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 272558001995 hypothetical protein; Provisional; Region: PRK09272 272558001996 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 272558001997 putative Zn2+ binding site [ion binding]; other site 272558001998 putative DNA binding site [nucleotide binding]; other site 272558001999 Helix-turn-helix domains; Region: HTH; cl00088 272558002000 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 272558002001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558002002 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 272558002003 substrate binding site [chemical binding]; other site 272558002004 putative active site [active] 272558002005 dimer interface [polypeptide binding]; other site 272558002006 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 272558002007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002008 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 272558002009 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 272558002010 nucleotide binding pocket [chemical binding]; other site 272558002011 K-X-D-G motif; other site 272558002012 catalytic site [active] 272558002013 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272558002014 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272558002015 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 272558002016 Dimer interface [polypeptide binding]; other site 272558002017 BRCT sequence motif; other site 272558002018 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 272558002019 Predicted transcriptional regulators [Transcription]; Region: COG1725 272558002020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558002021 DNA-binding site [nucleotide binding]; DNA binding site 272558002022 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558002023 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 272558002024 Walker A/P-loop; other site 272558002025 ATP binding site [chemical binding]; other site 272558002026 Q-loop/lid; other site 272558002027 ABC transporter signature motif; other site 272558002028 Walker B; other site 272558002029 D-loop; other site 272558002030 H-loop/switch region; other site 272558002031 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 272558002032 Arginase family; Region: Arginase; cl00306 272558002033 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 272558002034 dimerization interface [polypeptide binding]; other site 272558002035 putative DNA binding site [nucleotide binding]; other site 272558002036 putative Zn2+ binding site [ion binding]; other site 272558002037 Rrf2 family protein; Region: rrf2_super; TIGR00738 272558002038 Helix-turn-helix domains; Region: HTH; cl00088 272558002039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002040 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272558002041 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 272558002042 Sodium:solute symporter family; Region: SSF; cl00456 272558002043 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272558002044 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 272558002045 TPR motif; other site 272558002046 binding surface 272558002047 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 272558002048 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 272558002049 putative Cl- selectivity filter; other site 272558002050 putative pore gating glutamate residue; other site 272558002051 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558002052 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272558002053 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272558002054 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 272558002055 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272558002056 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272558002057 GatB domain; Region: GatB_Yqey; cl11497 272558002058 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558002059 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558002060 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558002061 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 272558002062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002063 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 272558002064 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558002065 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 272558002066 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 272558002067 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558002068 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 272558002069 active site turn [active] 272558002070 phosphorylation site [posttranslational modification] 272558002071 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 272558002072 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 272558002073 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 272558002074 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272558002075 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 272558002076 putative lipid kinase; Reviewed; Region: PRK13337 272558002077 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272558002078 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 272558002079 putative DNA binding site [nucleotide binding]; other site 272558002080 dimerization interface [polypeptide binding]; other site 272558002081 putative Zn2+ binding site [ion binding]; other site 272558002082 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 272558002083 FixH; Region: FixH; cl01254 272558002084 FixH; Region: FixH; cl01254 272558002085 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 272558002086 hydrophobic ligand binding site; other site 272558002087 Protein of unknown function (DUF779); Region: DUF779; cl01432 272558002088 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 272558002089 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558002090 NAD(P) binding site [chemical binding]; other site 272558002091 catalytic residues [active] 272558002092 Transposase domain (DUF772); Region: DUF772; cl15789 272558002093 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558002094 Transposase domain (DUF772); Region: DUF772; cl15789 272558002095 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 272558002096 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272558002097 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 272558002098 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 272558002099 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 272558002100 active site 272558002101 catalytic residues [active] 272558002102 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272558002103 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272558002104 TRAM domain; Region: TRAM; cl01282 272558002105 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 272558002106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002107 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 272558002108 S-adenosylmethionine binding site [chemical binding]; other site 272558002109 Helix-turn-helix domains; Region: HTH; cl00088 272558002110 putative transposase OrfB; Reviewed; Region: PHA02517 272558002111 HTH-like domain; Region: HTH_21; pfam13276 272558002112 Integrase core domain; Region: rve; cl01316 272558002113 Integrase core domain; Region: rve_3; cl15866 272558002114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558002115 MULE transposase domain; Region: MULE; pfam10551 272558002116 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 272558002117 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558002118 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 272558002119 putative peptidoglycan binding site; other site 272558002120 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 272558002121 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 272558002122 putative peptidoglycan binding site; other site 272558002123 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 272558002124 putative peptidoglycan binding site; other site 272558002125 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 272558002126 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 272558002127 dimerization interface [polypeptide binding]; other site 272558002128 putative DNA binding site [nucleotide binding]; other site 272558002129 putative Zn2+ binding site [ion binding]; other site 272558002130 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 272558002131 hydrophobic ligand binding site; other site 272558002132 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 272558002133 active site 272558002134 catalytic residues [active] 272558002135 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 272558002136 active site pocket [active] 272558002137 oxyanion hole [active] 272558002138 catalytic triad [active] 272558002139 active site nucleophile [active] 272558002140 Pectate lyase [Carbohydrate transport and metabolism]; Region: PelB; COG3866 272558002141 Pectate lyase; Region: Pec_lyase_C; cl01593 272558002142 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558002143 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558002144 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 272558002145 putative DNA binding site [nucleotide binding]; other site 272558002146 putative Zn2+ binding site [ion binding]; other site 272558002147 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272558002148 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558002149 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558002150 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272558002151 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272558002152 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272558002153 DctM-like transporters; Region: DctM; pfam06808 272558002154 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558002155 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 272558002156 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 272558002157 putative active site [active] 272558002158 putative catalytic site [active] 272558002159 Glucuronate isomerase; Region: UxaC; cl00829 272558002160 mannonate dehydratase; Provisional; Region: PRK03906 272558002161 mannonate dehydratase; Region: uxuA; TIGR00695 272558002162 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 272558002163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558002164 putative NAD(P) binding site [chemical binding]; other site 272558002165 active site 272558002166 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558002167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002168 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272558002169 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558002170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002171 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558002172 Cupin domain; Region: Cupin_2; cl09118 272558002173 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272558002174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002175 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272558002176 Cation efflux family; Region: Cation_efflux; cl00316 272558002177 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558002178 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558002179 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002180 Walker A/P-loop; other site 272558002181 ATP binding site [chemical binding]; other site 272558002182 Q-loop/lid; other site 272558002183 ABC transporter signature motif; other site 272558002184 Walker B; other site 272558002185 D-loop; other site 272558002186 H-loop/switch region; other site 272558002187 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 272558002188 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 272558002189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002190 Walker A/P-loop; other site 272558002191 ATP binding site [chemical binding]; other site 272558002192 Q-loop/lid; other site 272558002193 ABC transporter signature motif; other site 272558002194 Walker B; other site 272558002195 D-loop; other site 272558002196 H-loop/switch region; other site 272558002197 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558002198 Helix-turn-helix domains; Region: HTH; cl00088 272558002199 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558002200 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 272558002201 Predicted membrane protein [Function unknown]; Region: COG1511 272558002202 Protein of unknown function (DUF1200); Region: DUF1200; pfam06713 272558002203 Cupin domain; Region: Cupin_2; cl09118 272558002204 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272558002205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002206 EamA-like transporter family; Region: EamA; cl01037 272558002207 EamA-like transporter family; Region: EamA; cl01037 272558002208 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 272558002209 putative dimer interface [polypeptide binding]; other site 272558002210 catalytic triad [active] 272558002211 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 272558002212 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 272558002213 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 272558002214 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 272558002215 MoxR-like ATPases [General function prediction only]; Region: COG0714 272558002216 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 272558002217 Walker A motif; other site 272558002218 ATP binding site [chemical binding]; other site 272558002219 Walker B motif; other site 272558002220 arginine finger; other site 272558002221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002222 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 272558002223 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 272558002224 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 272558002225 metal ion-dependent adhesion site (MIDAS); other site 272558002226 Integral membrane protein DUF95; Region: DUF95; cl00572 272558002227 RDD family; Region: RDD; cl00746 272558002228 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 272558002229 catalytic core [active] 272558002230 Helix-turn-helix domains; Region: HTH; cl00088 272558002231 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 272558002232 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 272558002233 putative NAD(P) binding site [chemical binding]; other site 272558002234 dimer interface [polypeptide binding]; other site 272558002235 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 272558002236 Putative D-pathway homolog; other site 272558002237 Low-spin heme binding site [chemical binding]; other site 272558002238 Subunit I/II interface [polypeptide binding]; other site 272558002239 Putative Q-pathway; other site 272558002240 Putative alternate electron transfer pathway; other site 272558002241 Putative water exit pathway; other site 272558002242 Binuclear center (active site) [active] 272558002243 Putative K-pathway homolog; other site 272558002244 Putative proton exit pathway; other site 272558002245 Subunit I/IIa interface [polypeptide binding]; other site 272558002246 Electron transfer pathway; other site 272558002247 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558002248 Coat F domain; Region: Coat_F; cl15836 272558002249 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 272558002250 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272558002251 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558002252 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558002253 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 272558002254 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272558002255 active site 272558002256 putative substrate binding pocket [chemical binding]; other site 272558002257 xanthine dehydrogenase C subunit; Region: pucC; TIGR03199 272558002258 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272558002259 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 272558002260 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272558002261 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272558002262 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 272558002263 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272558002264 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 272558002265 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272558002266 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 272558002267 Ligand binding site; other site 272558002268 metal-binding site 272558002269 FtsX-like permease family; Region: FtsX; cl15850 272558002270 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558002271 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 272558002272 Walker A/P-loop; other site 272558002273 ATP binding site [chemical binding]; other site 272558002274 Q-loop/lid; other site 272558002275 ABC transporter signature motif; other site 272558002276 Walker B; other site 272558002277 D-loop; other site 272558002278 H-loop/switch region; other site 272558002279 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 272558002280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272558002281 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 272558002282 ATP binding site [chemical binding]; other site 272558002283 Mg2+ binding site [ion binding]; other site 272558002284 G-X-G motif; other site 272558002285 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558002286 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 272558002287 active site 272558002288 phosphorylation site [posttranslational modification] 272558002289 intermolecular recognition site; other site 272558002290 dimerization interface [polypeptide binding]; other site 272558002291 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 272558002292 DNA binding site [nucleotide binding] 272558002293 Predicted membrane protein [Function unknown]; Region: COG2311 272558002294 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558002295 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558002296 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 272558002297 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272558002298 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 272558002299 Uricase (urate oxidase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3648 272558002300 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 272558002301 active site 272558002302 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 272558002303 active site 272558002304 homotetramer interface [polypeptide binding]; other site 272558002305 allantoate amidohydrolase; Reviewed; Region: PRK09290 272558002306 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 272558002307 active site 272558002308 metal binding site [ion binding]; metal-binding site 272558002309 dimer interface [polypeptide binding]; other site 272558002310 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 272558002311 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 272558002312 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558002313 catalytic residue [active] 272558002314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558002315 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 272558002316 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 272558002317 dimer interface [polypeptide binding]; other site 272558002318 active site 272558002319 CoA binding pocket [chemical binding]; other site 272558002320 Transposase domain (DUF772); Region: DUF772; cl15789 272558002321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558002322 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558002323 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 272558002324 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 272558002325 Glucitol operon activator protein (GutM); Region: GutM; cl01890 272558002326 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 272558002327 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 272558002328 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 272558002329 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 272558002330 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 272558002331 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 272558002332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002333 SAF domain; Region: SAF; cl00555 272558002334 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 272558002335 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 272558002336 tetramer interface [polypeptide binding]; other site 272558002337 TPP-binding site [chemical binding]; other site 272558002338 heterodimer interface [polypeptide binding]; other site 272558002339 phosphorylation loop region [posttranslational modification] 272558002340 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272558002341 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 272558002342 alpha subunit interface [polypeptide binding]; other site 272558002343 TPP binding site [chemical binding]; other site 272558002344 heterodimer interface [polypeptide binding]; other site 272558002345 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558002346 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272558002347 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 272558002348 E3 interaction surface; other site 272558002349 lipoyl attachment site [posttranslational modification]; other site 272558002350 e3 binding domain; Region: E3_binding; pfam02817 272558002351 e3 binding domain; Region: E3_binding; pfam02817 272558002352 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558002353 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 272558002354 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558002355 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558002356 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272558002357 Helix-turn-helix domains; Region: HTH; cl00088 272558002358 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272558002359 CAT RNA binding domain; Region: CAT_RBD; cl03904 272558002360 PRD domain; Region: PRD; cl15445 272558002361 PRD domain; Region: PRD; cl15445 272558002362 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 272558002363 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 272558002364 inhibitor-cofactor binding pocket; inhibition site 272558002365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002366 catalytic residue [active] 272558002367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272558002369 Histidine kinase; Region: HisKA_3; pfam07730 272558002370 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 272558002371 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the...; Region: GH85_ENGase; cd06547 272558002372 putative active site [active] 272558002373 FOG: PKD repeat [General function prediction only]; Region: COG3291 272558002374 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 272558002375 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 272558002376 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272558002377 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558002378 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558002379 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 272558002380 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 272558002381 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 272558002382 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 272558002383 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 272558002384 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 272558002385 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 272558002386 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 272558002387 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558002388 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 272558002389 Histidine kinase; Region: His_kinase; pfam06580 272558002390 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 272558002391 ATP binding site [chemical binding]; other site 272558002392 Mg2+ binding site [ion binding]; other site 272558002393 G-X-G motif; other site 272558002394 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558002395 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 272558002396 active site 272558002397 phosphorylation site [posttranslational modification] 272558002398 intermolecular recognition site; other site 272558002399 dimerization interface [polypeptide binding]; other site 272558002400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002401 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558002402 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 272558002403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558002404 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 272558002405 dimer interface [polypeptide binding]; other site 272558002406 conserved gate region; other site 272558002407 putative PBP binding loops; other site 272558002408 ABC-ATPase subunit interface; other site 272558002409 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558002410 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 272558002411 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272558002412 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558002413 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 272558002414 methionine gamma-lyase; Provisional; Region: PRK06767 272558002415 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 272558002416 homodimer interface [polypeptide binding]; other site 272558002417 substrate-cofactor binding pocket; other site 272558002418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002419 catalytic residue [active] 272558002420 short chain dehydrogenase; Provisional; Region: PRK06701 272558002421 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272558002422 NAD binding site [chemical binding]; other site 272558002423 metal binding site [ion binding]; metal-binding site 272558002424 active site 272558002425 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272558002426 Helix-turn-helix domains; Region: HTH; cl00088 272558002427 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 272558002428 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 272558002429 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 272558002430 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 272558002431 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 272558002432 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 272558002433 GntP family permease; Region: GntP_permease; pfam02447 272558002434 Domain of unknown function (DUF718); Region: DUF718; cl01281 272558002435 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 272558002436 putative substrate translocation pore; other site 272558002437 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558002438 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 272558002439 active site 272558002440 metal binding site [ion binding]; metal-binding site 272558002441 Sporulation related domain; Region: SPOR; cl10051 272558002442 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 272558002443 putative peptidoglycan binding site; other site 272558002444 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272558002445 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 272558002446 dimer interface [polypeptide binding]; other site 272558002447 ADP-ribose binding site [chemical binding]; other site 272558002448 active site 272558002449 nudix motif; other site 272558002450 metal binding site [ion binding]; metal-binding site 272558002451 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558002452 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272558002453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002454 Walker A/P-loop; other site 272558002455 ATP binding site [chemical binding]; other site 272558002456 Q-loop/lid; other site 272558002457 ABC transporter signature motif; other site 272558002458 Walker B; other site 272558002459 D-loop; other site 272558002460 H-loop/switch region; other site 272558002461 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558002462 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558002463 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 272558002464 Walker A/P-loop; other site 272558002465 ATP binding site [chemical binding]; other site 272558002466 Q-loop/lid; other site 272558002467 ABC transporter signature motif; other site 272558002468 Walker B; other site 272558002469 D-loop; other site 272558002470 H-loop/switch region; other site 272558002471 ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_PF0470_like; cd06555 272558002472 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 272558002473 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558002474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002475 Walker A/P-loop; other site 272558002476 ATP binding site [chemical binding]; other site 272558002477 Q-loop/lid; other site 272558002478 ABC transporter signature motif; other site 272558002479 Walker B; other site 272558002480 D-loop; other site 272558002481 H-loop/switch region; other site 272558002482 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 272558002483 dimer interface [polypeptide binding]; other site 272558002484 phosphorylation site [posttranslational modification] 272558002485 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 272558002486 ATP binding site [chemical binding]; other site 272558002487 Mg2+ binding site [ion binding]; other site 272558002488 G-X-G motif; other site 272558002489 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558002490 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 272558002491 active site 272558002492 phosphorylation site [posttranslational modification] 272558002493 intermolecular recognition site; other site 272558002494 dimerization interface [polypeptide binding]; other site 272558002495 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 272558002496 DNA binding site [nucleotide binding] 272558002497 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 272558002498 S-adenosylmethionine binding site [chemical binding]; other site 272558002499 MatE; Region: MatE; cl10513 272558002500 MatE; Region: MatE; cl10513 272558002501 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 272558002502 active site 272558002503 dimer interface [polypeptide binding]; other site 272558002504 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272558002505 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558002506 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272558002507 NAD(P) binding site [chemical binding]; other site 272558002508 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558002509 DinB superfamily; Region: DinB_2; pfam12867 272558002510 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272558002511 Helix-turn-helix domains; Region: HTH; cl00088 272558002512 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 272558002513 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 272558002514 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 272558002515 putative substrate binding site [chemical binding]; other site 272558002516 putative ATP binding site [chemical binding]; other site 272558002517 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 272558002518 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 272558002519 active site 272558002520 phosphorylation site [posttranslational modification] 272558002521 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 272558002522 P-loop; other site 272558002523 active site 272558002524 phosphorylation site [posttranslational modification] 272558002525 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558002526 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 272558002527 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 272558002528 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 272558002529 putative active site [active] 272558002530 catalytic triad [active] 272558002531 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 272558002532 PA/protease domain interface [polypeptide binding]; other site 272558002533 putative integrin binding motif; other site 272558002534 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 272558002535 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272558002536 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 272558002537 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 272558002538 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272558002539 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272558002540 active site 272558002541 HIGH motif; other site 272558002542 KMSK motif region; other site 272558002543 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 272558002544 tRNA binding surface [nucleotide binding]; other site 272558002545 anticodon binding site; other site 272558002546 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 272558002547 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272558002548 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558002549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558002550 Helix-turn-helix domains; Region: HTH; cl00088 272558002551 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 272558002552 dimerization interface [polypeptide binding]; other site 272558002553 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272558002554 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 272558002555 rod-share determining protein MreBH; Provisional; Region: PRK13929 272558002556 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 272558002557 ATP binding site [chemical binding]; other site 272558002558 gelsolin binding site; other site 272558002559 profilin binding site; other site 272558002560 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558002561 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 272558002562 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 272558002563 active site turn [active] 272558002564 phosphorylation site [posttranslational modification] 272558002565 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 272558002566 HPr interaction site; other site 272558002567 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272558002568 active site 272558002569 phosphorylation site [posttranslational modification] 272558002570 CAT RNA binding domain; Region: CAT_RBD; cl03904 272558002571 transcriptional antiterminator BglG; Provisional; Region: PRK09772 272558002572 PRD domain; Region: PRD; cl15445 272558002573 PRD domain; Region: PRD; cl15445 272558002574 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 272558002575 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558002576 active site 272558002577 motif I; other site 272558002578 motif II; other site 272558002579 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558002580 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558002581 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272558002582 Helix-turn-helix domains; Region: HTH; cl00088 272558002583 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 272558002584 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 272558002585 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558002586 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 272558002587 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558002588 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 272558002589 dimer interface [polypeptide binding]; other site 272558002590 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002591 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558002592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002593 Protein of unknown function, DUF393; Region: DUF393; cl01136 272558002594 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 272558002595 active site 272558002596 catalytic residues [active] 272558002597 Putative catalytic NodB homology domain of uncharacterized BH0857 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH0857_like; cd10955 272558002598 NodB motif; other site 272558002599 putative active site [active] 272558002600 putative catalytic site [active] 272558002601 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 272558002602 Membrane transport protein; Region: Mem_trans; cl09117 272558002603 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 272558002604 multidrug efflux protein; Reviewed; Region: PRK01766 272558002605 MatE; Region: MatE; cl10513 272558002606 MatE; Region: MatE; cl10513 272558002607 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 272558002608 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 272558002609 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 272558002610 RNA/DNA hybrid binding site [nucleotide binding]; other site 272558002611 active site 272558002612 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 272558002613 NAD(P) binding site [chemical binding]; other site 272558002614 catalytic residues [active] 272558002615 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558002616 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 272558002617 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 272558002618 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 272558002619 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272558002620 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 272558002621 putative DNA binding site [nucleotide binding]; other site 272558002622 putative Zn2+ binding site [ion binding]; other site 272558002623 Helix-turn-helix domains; Region: HTH; cl00088 272558002624 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 272558002625 Chromate transporter; Region: Chromate_transp; pfam02417 272558002626 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 272558002627 Chromate transporter; Region: Chromate_transp; pfam02417 272558002628 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 272558002629 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 272558002630 active site 272558002631 Zn binding site [ion binding]; other site 272558002632 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272558002633 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 272558002634 Ca binding site [ion binding]; other site 272558002635 active site 272558002636 catalytic site [active] 272558002637 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 272558002638 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558002639 DNA-binding site [nucleotide binding]; DNA binding site 272558002640 UTRA domain; Region: UTRA; cl01230 272558002641 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 272558002642 dimer interface [polypeptide binding]; other site 272558002643 Alkaline phosphatase homologues; Region: alkPPc; smart00098 272558002644 active site 272558002645 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 272558002646 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 272558002647 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 272558002648 CHASE3 domain; Region: CHASE3; cl05000 272558002649 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 272558002650 dimerization interface [polypeptide binding]; other site 272558002651 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558002652 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558002653 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 272558002654 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 272558002655 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272558002656 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272558002657 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 272558002658 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558002659 Helix-turn-helix domains; Region: HTH; cl00088 272558002660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272558002661 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 272558002662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558002663 putative substrate translocation pore; other site 272558002664 OsmC-like protein; Region: OsmC; cl00767 272558002665 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272558002666 MatE; Region: MatE; cl10513 272558002667 MatE; Region: MatE; cl10513 272558002668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002669 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 272558002670 YfkD-like protein; Region: YfkD; pfam14167 272558002671 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 272558002672 FeS/SAM binding site; other site 272558002673 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272558002674 YfkB-like domain; Region: YfkB; pfam08756 272558002675 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 272558002676 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 272558002677 catalytic core [active] 272558002678 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 272558002679 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 272558002680 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 272558002681 Fumarase C-terminus; Region: Fumerase_C; cl00795 272558002682 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 272558002683 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272558002684 NodB motif; other site 272558002685 active site 272558002686 catalytic site [active] 272558002687 Cd binding site [ion binding]; other site 272558002688 TRAM domain; Region: TRAM; cl01282 272558002689 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 272558002690 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 272558002691 S-adenosylmethionine binding site [chemical binding]; other site 272558002692 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 272558002693 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 272558002694 Uncharacterized conserved protein [Function unknown]; Region: COG1262 272558002695 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 272558002696 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558002697 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558002698 DNA binding site [nucleotide binding] 272558002699 domain linker motif; other site 272558002700 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 272558002701 dimerization interface [polypeptide binding]; other site 272558002702 ligand binding site [chemical binding]; other site 272558002703 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558002704 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 272558002705 dimer interface [polypeptide binding]; other site 272558002706 conserved gate region; other site 272558002707 putative PBP binding loops; other site 272558002708 ABC-ATPase subunit interface; other site 272558002709 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558002710 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 272558002711 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558002712 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558002713 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 272558002714 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 272558002715 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 272558002716 dimer interface [polypeptide binding]; other site 272558002717 active site 272558002718 heme binding site [chemical binding]; other site 272558002719 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 272558002720 NAD-dependent deacetylase; Provisional; Region: PRK14138 272558002721 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2_Af2; cd01413 272558002722 NAD+ binding site [chemical binding]; other site 272558002723 substrate binding site [chemical binding]; other site 272558002724 Zn binding site [ion binding]; other site 272558002725 TM2 domain; Region: TM2; cl00984 272558002726 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 272558002727 active site 272558002728 P-loop; other site 272558002729 phosphorylation site [posttranslational modification] 272558002730 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 272558002731 methionine cluster; other site 272558002732 active site 272558002733 phosphorylation site [posttranslational modification] 272558002734 metal binding site [ion binding]; metal-binding site 272558002735 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558002736 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 272558002737 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 272558002738 NAD binding site [chemical binding]; other site 272558002739 sugar binding site [chemical binding]; other site 272558002740 divalent metal binding site [ion binding]; other site 272558002741 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558002742 dimer interface [polypeptide binding]; other site 272558002743 YdjC-like protein; Region: YdjC; cl01344 272558002744 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272558002745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558002746 DNA-binding site [nucleotide binding]; DNA binding site 272558002747 UTRA domain; Region: UTRA; cl01230 272558002748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558002749 MULE transposase domain; Region: MULE; pfam10551 272558002750 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 272558002751 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 272558002752 active site 272558002753 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 272558002754 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 272558002755 Cupin domain; Region: Cupin_2; cl09118 272558002756 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 272558002757 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 272558002758 inhibitor-cofactor binding pocket; inhibition site 272558002759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002760 catalytic residue [active] 272558002761 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 272558002762 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558002763 Coenzyme A binding pocket [chemical binding]; other site 272558002764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272558002765 RecX family; Region: RecX; cl00936 272558002766 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 272558002767 YpzG-like protein; Region: YpzG; pfam14139 272558002768 Small acid-soluble spore protein K family; Region: SspK; cl11509 272558002769 WVELL protein; Region: WVELL; pfam14043 272558002770 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272558002771 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 272558002772 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 272558002773 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272558002774 minor groove reading motif; other site 272558002775 helix-hairpin-helix signature motif; other site 272558002776 substrate binding pocket [chemical binding]; other site 272558002777 active site 272558002778 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272558002779 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 272558002780 DNA binding and oxoG recognition site [nucleotide binding] 272558002781 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272558002782 classical (c) SDRs; Region: SDR_c; cd05233 272558002783 NAD(P) binding site [chemical binding]; other site 272558002784 active site 272558002785 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 272558002786 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 272558002787 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 272558002788 NAD(P) binding site [chemical binding]; other site 272558002789 aspartate aminotransferase; Provisional; Region: PRK07681 272558002790 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 272558002791 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002792 homodimer interface [polypeptide binding]; other site 272558002793 catalytic residue [active] 272558002794 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558002795 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 272558002796 putative NAD(P) binding site [chemical binding]; other site 272558002797 active site 272558002798 Protein of unknown function (DUF402); Region: DUF402; cl00979 272558002799 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558002800 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558002801 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 272558002802 Walker A/P-loop; other site 272558002803 ATP binding site [chemical binding]; other site 272558002804 Q-loop/lid; other site 272558002805 ABC transporter signature motif; other site 272558002806 Walker B; other site 272558002807 D-loop; other site 272558002808 H-loop/switch region; other site 272558002809 Predicted membrane protein [Function unknown]; Region: COG4129 272558002810 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 272558002811 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 272558002812 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 272558002813 inhibitor-cofactor binding pocket; inhibition site 272558002814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002815 catalytic residue [active] 272558002816 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 272558002817 non-specific DNA binding site [nucleotide binding]; other site 272558002818 salt bridge; other site 272558002819 sequence-specific DNA binding site [nucleotide binding]; other site 272558002820 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 272558002821 putative DNA binding site [nucleotide binding]; other site 272558002822 dimerization interface [polypeptide binding]; other site 272558002823 putative Zn2+ binding site [ion binding]; other site 272558002824 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 272558002825 catalytic triad [active] 272558002826 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 272558002827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558002828 Nitrogen regulatory protein P-II; Region: P-II; cl00412 272558002829 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272558002830 metal binding site 2 [ion binding]; metal-binding site 272558002831 putative DNA binding helix; other site 272558002832 metal binding site 1 [ion binding]; metal-binding site 272558002833 dimer interface [polypeptide binding]; other site 272558002834 structural Zn2+ binding site [ion binding]; other site 272558002835 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 272558002836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558002837 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558002838 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558002839 Phage major tail protein 2; Region: Phage_tail_2; cl11463 272558002840 Phage protein; Region: DUF3647; cl10335 272558002841 Phage-related protein [Function unknown]; Region: COG5412 272558002842 membrane protein P6; Region: PHA01399 272558002843 Phage tail protein; Region: Sipho_tail; cl11462 272558002844 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 272558002845 gp58-like protein; Region: Gp58; pfam07902 272558002846 Holin family; Region: Phage_holin_4; cl01989 272558002847 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 272558002848 active site 272558002849 metal binding site [ion binding]; metal-binding site 272558002850 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558002851 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558002852 Phage lysis protein, holin; Region: Phage_holin; cl04675 272558002853 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272558002854 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 272558002855 ATP binding site [chemical binding]; other site 272558002856 putative Mg++ binding site [ion binding]; other site 272558002857 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 272558002858 nucleotide binding region [chemical binding]; other site 272558002859 ATP-binding site [chemical binding]; other site 272558002860 Predicted membrane protein [Function unknown]; Region: COG1511 272558002861 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272558002862 Predicted membrane protein [Function unknown]; Region: COG1511 272558002863 Proteins of 100 residues with WXG; Region: WXG100; cl02005 272558002864 Ubiquitin-like proteins; Region: UBQ; cl00155 272558002865 Predicted membrane protein essB; Region: essB; cl01868 272558002866 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 272558002867 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 272558002868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002871 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 272558002872 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558002873 Protein of unknown function (DUF443); Region: DUF443; cl04467 272558002874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 272558002875 Transposase domain (DUF772); Region: DUF772; cl12084 272558002876 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558002877 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272558002878 PepSY-associated TM helix; Region: PepSY_TM; pfam03929 272558002879 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272558002880 FixH; Region: FixH; cl01254 272558002881 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_33; cd04692 272558002882 nudix motif; other site 272558002883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558002884 Helix-turn-helix domains; Region: HTH; cl00088 272558002885 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558002886 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558002887 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 272558002888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558002890 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272558002891 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 272558002892 intersubunit interface [polypeptide binding]; other site 272558002893 4-aminobutyrate aminotransferase; Reviewed; Region: PRK06918 272558002894 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 272558002895 inhibitor-cofactor binding pocket; inhibition site 272558002896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558002897 catalytic residue [active] 272558002898 PAS fold; Region: PAS_4; pfam08448 272558002899 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 272558002900 putative active site [active] 272558002901 heme pocket [chemical binding]; other site 272558002902 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272558002903 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 272558002904 Walker A motif; other site 272558002905 ATP binding site [chemical binding]; other site 272558002906 Walker B motif; other site 272558002907 arginine finger; other site 272558002908 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558002909 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558002910 Spore germination protein; Region: Spore_permease; cl15802 272558002911 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558002912 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272558002913 tetramerization interface [polypeptide binding]; other site 272558002914 NAD(P) binding site [chemical binding]; other site 272558002915 catalytic residues [active] 272558002916 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 272558002917 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 272558002918 DinB superfamily; Region: DinB_2; pfam12867 272558002919 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 272558002920 metal binding site [ion binding]; metal-binding site 272558002921 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558002922 Coenzyme A binding pocket [chemical binding]; other site 272558002923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558002924 Helix-turn-helix domains; Region: HTH; cl00088 272558002925 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558002926 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 272558002927 Walker A/P-loop; other site 272558002928 ATP binding site [chemical binding]; other site 272558002929 Q-loop/lid; other site 272558002930 ABC transporter signature motif; other site 272558002931 Walker B; other site 272558002932 D-loop; other site 272558002933 H-loop/switch region; other site 272558002934 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558002935 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 272558002936 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558002937 NAD(P) binding site [chemical binding]; other site 272558002938 catalytic residues [active] 272558002939 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558002940 heat shock protein 90; Provisional; Region: PRK05218 272558002941 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 272558002942 ATP binding site [chemical binding]; other site 272558002943 Mg2+ binding site [ion binding]; other site 272558002944 G-X-G motif; other site 272558002945 EamA-like transporter family; Region: EamA; cl01037 272558002946 Helix-turn-helix domains; Region: HTH; cl00088 272558002947 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558002948 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272558002949 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 272558002950 active site 272558002951 catalytic tetrad [active] 272558002952 Predicted acetyltransferase [General function prediction only]; Region: COG3393 272558002953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558002954 Coenzyme A binding pocket [chemical binding]; other site 272558002955 topology modulation protein; Reviewed; Region: PRK08118 272558002956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558002957 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272558002958 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 272558002959 active site 272558002960 metal binding site [ion binding]; metal-binding site 272558002961 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272558002962 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272558002963 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG4085 272558002964 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 272558002965 generic binding surface I; other site 272558002966 generic binding surface II; other site 272558002967 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 272558002968 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558002969 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 272558002970 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 272558002971 Ferritin-like domain; Region: Ferritin; pfam00210 272558002972 dimerization interface [polypeptide binding]; other site 272558002973 DPS ferroxidase diiron center [ion binding]; other site 272558002974 ion pore; other site 272558002975 B3/4 domain; Region: B3_4; cl11458 272558002976 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 272558002977 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 272558002978 HEAT repeats; Region: HEAT_2; pfam13646 272558002979 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272558002980 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 272558002981 DNA binding site [nucleotide binding] 272558002982 active site 272558002983 NlpC/P60 family; Region: NLPC_P60; cl11438 272558002984 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272558002985 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272558002986 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 272558002987 ABC-ATPase subunit interface; other site 272558002988 dimer interface [polypeptide binding]; other site 272558002989 putative PBP binding regions; other site 272558002990 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 272558002991 ABC-ATPase subunit interface; other site 272558002992 dimer interface [polypeptide binding]; other site 272558002993 putative PBP binding regions; other site 272558002994 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 272558002995 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 272558002996 Walker A/P-loop; other site 272558002997 ATP binding site [chemical binding]; other site 272558002998 Q-loop/lid; other site 272558002999 ABC transporter signature motif; other site 272558003000 Walker B; other site 272558003001 D-loop; other site 272558003002 H-loop/switch region; other site 272558003003 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 272558003004 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 272558003005 putative ligand binding residues [chemical binding]; other site 272558003006 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 272558003007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003008 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 272558003009 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272558003010 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 272558003011 Catalytic site [active] 272558003012 Uncharacterized conserved protein [Function unknown]; Region: COG2718 272558003013 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 272558003014 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272558003015 Uncharacterized conserved protein [Function unknown]; Region: COG1633 272558003016 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 272558003017 dinuclear metal binding motif [ion binding]; other site 272558003018 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 272558003019 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 272558003020 inhibitor-cofactor binding pocket; inhibition site 272558003021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558003022 catalytic residue [active] 272558003023 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 272558003024 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272558003025 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 272558003026 siderophore binding site; other site 272558003027 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 272558003028 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 272558003029 ABC-ATPase subunit interface; other site 272558003030 dimer interface [polypeptide binding]; other site 272558003031 putative PBP binding regions; other site 272558003032 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 272558003033 ABC-ATPase subunit interface; other site 272558003034 dimer interface [polypeptide binding]; other site 272558003035 putative PBP binding regions; other site 272558003036 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558003037 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 272558003038 Walker A/P-loop; other site 272558003039 ATP binding site [chemical binding]; other site 272558003040 Q-loop/lid; other site 272558003041 ABC transporter signature motif; other site 272558003042 Walker B; other site 272558003043 D-loop; other site 272558003044 H-loop/switch region; other site 272558003045 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 272558003046 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 272558003047 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 272558003048 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558003049 Sugar fermentation stimulation protein; Region: SfsA; cl00647 272558003050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558003051 Coenzyme A binding pocket [chemical binding]; other site 272558003052 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558003053 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558003054 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272558003055 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 272558003056 putative active site [active] 272558003057 catalytic triad [active] 272558003058 putative dimer interface [polypeptide binding]; other site 272558003059 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 272558003060 dimer interface [polypeptide binding]; other site 272558003061 FMN binding site [chemical binding]; other site 272558003062 NADPH bind site [chemical binding]; other site 272558003063 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003064 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003065 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272558003066 Histidine kinase; Region: HisKA_3; pfam07730 272558003067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558003068 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 272558003069 active site 272558003070 phosphorylation site [posttranslational modification] 272558003071 intermolecular recognition site; other site 272558003072 dimerization interface [polypeptide binding]; other site 272558003073 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 272558003074 DNA binding residues [nucleotide binding] 272558003075 dimerization interface [polypeptide binding]; other site 272558003076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003077 Transposase domain (DUF772); Region: DUF772; cl12084 272558003078 Transposase domain (DUF772); Region: DUF772; cl12084 272558003079 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558003080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003081 Walker A/P-loop; other site 272558003082 ATP binding site [chemical binding]; other site 272558003083 Q-loop/lid; other site 272558003084 ABC transporter signature motif; other site 272558003085 Walker B; other site 272558003086 D-loop; other site 272558003087 H-loop/switch region; other site 272558003088 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272558003089 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558003090 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558003091 Helix-turn-helix domains; Region: HTH; cl00088 272558003092 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 272558003093 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 272558003094 heme-binding site [chemical binding]; other site 272558003095 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 272558003096 FAD binding pocket [chemical binding]; other site 272558003097 FAD binding motif [chemical binding]; other site 272558003098 phosphate binding motif [ion binding]; other site 272558003099 beta-alpha-beta structure motif; other site 272558003100 NAD binding pocket [chemical binding]; other site 272558003101 Heme binding pocket [chemical binding]; other site 272558003102 acetylornithine deacetylase; Validated; Region: PRK06915 272558003103 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 272558003104 metal binding site [ion binding]; metal-binding site 272558003105 dimer interface [polypeptide binding]; other site 272558003106 transaminase; Reviewed; Region: PRK08068 272558003107 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 272558003108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558003109 homodimer interface [polypeptide binding]; other site 272558003110 catalytic residue [active] 272558003111 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 272558003112 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 272558003113 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 272558003114 Transcriptional regulators [Transcription]; Region: GntR; COG1802 272558003115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558003116 DNA-binding site [nucleotide binding]; DNA binding site 272558003117 FCD domain; Region: FCD; cl11656 272558003118 mannonate dehydratase; Provisional; Region: PRK03906 272558003119 mannonate dehydratase; Region: uxuA; TIGR00695 272558003120 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558003121 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558003122 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 272558003123 dimer interface [polypeptide binding]; other site 272558003124 conserved gate region; other site 272558003125 putative PBP binding loops; other site 272558003126 ABC-ATPase subunit interface; other site 272558003127 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558003128 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 272558003129 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 272558003130 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558003131 putative NAD(P) binding site [chemical binding]; other site 272558003132 active site 272558003133 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 272558003134 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272558003135 dimanganese center [ion binding]; other site 272558003136 tartrate dehydrogenase; Provisional; Region: PRK08194 272558003137 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272558003138 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272558003139 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272558003140 Helix-turn-helix domains; Region: HTH; cl00088 272558003141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558003142 Coenzyme A binding pocket [chemical binding]; other site 272558003143 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 272558003144 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 272558003145 active site 272558003146 motif I; other site 272558003147 motif II; other site 272558003148 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 272558003149 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558003150 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 272558003151 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272558003152 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003153 Walker A/P-loop; other site 272558003154 ATP binding site [chemical binding]; other site 272558003155 Q-loop/lid; other site 272558003156 ABC transporter signature motif; other site 272558003157 Walker B; other site 272558003158 D-loop; other site 272558003159 H-loop/switch region; other site 272558003160 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 272558003161 dimer interface [polypeptide binding]; other site 272558003162 conserved gate region; other site 272558003163 putative PBP binding loops; other site 272558003164 ABC-ATPase subunit interface; other site 272558003165 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 272558003166 dimer interface [polypeptide binding]; other site 272558003167 conserved gate region; other site 272558003168 ABC-ATPase subunit interface; other site 272558003169 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558003170 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 272558003171 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 272558003172 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 272558003173 active site 272558003174 catalytic site [active] 272558003175 metal binding site [ion binding]; metal-binding site 272558003176 dimer interface [polypeptide binding]; other site 272558003177 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558003178 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 272558003179 Walker A/P-loop; other site 272558003180 ATP binding site [chemical binding]; other site 272558003181 Q-loop/lid; other site 272558003182 ABC transporter signature motif; other site 272558003183 Walker B; other site 272558003184 D-loop; other site 272558003185 H-loop/switch region; other site 272558003186 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272558003187 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 272558003188 ABC-ATPase subunit interface; other site 272558003189 dimer interface [polypeptide binding]; other site 272558003190 putative PBP binding regions; other site 272558003191 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 272558003192 ABC-ATPase subunit interface; other site 272558003193 dimer interface [polypeptide binding]; other site 272558003194 putative PBP binding regions; other site 272558003195 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 272558003196 homodimer interface [polypeptide binding]; other site 272558003197 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272558003198 active site pocket [active] 272558003199 glycogen/starch synthases, ADP-glucose type; Region: glgA; TIGR02095 272558003200 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 272558003201 ADP-binding pocket [chemical binding]; other site 272558003202 homodimer interface [polypeptide binding]; other site 272558003203 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 272558003204 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272558003205 ligand binding site; other site 272558003206 oligomer interface; other site 272558003207 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 272558003208 dimer interface [polypeptide binding]; other site 272558003209 N-terminal domain interface [polypeptide binding]; other site 272558003210 sulfate 1 binding site; other site 272558003211 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 272558003212 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272558003213 ligand binding site; other site 272558003214 oligomer interface; other site 272558003215 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 272558003216 dimer interface [polypeptide binding]; other site 272558003217 N-terminal domain interface [polypeptide binding]; other site 272558003218 sulfate 1 binding site; other site 272558003219 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 272558003220 CheC-like family; Region: CheC; pfam04509 272558003221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558003222 Coenzyme A binding pocket [chemical binding]; other site 272558003223 Predicted amidohydrolase [General function prediction only]; Region: COG0388 272558003224 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 272558003225 putative active site [active] 272558003226 catalytic triad [active] 272558003227 putative dimer interface [polypeptide binding]; other site 272558003228 FixH; Region: FixH; cl01254 272558003229 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 272558003230 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 272558003231 amphipathic channel; other site 272558003232 Asn-Pro-Ala signature motifs; other site 272558003233 glycerol kinase; Provisional; Region: glpK; PRK00047 272558003234 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 272558003235 N- and C-terminal domain interface [polypeptide binding]; other site 272558003236 active site 272558003237 MgATP binding site [chemical binding]; other site 272558003238 catalytic site [active] 272558003239 metal binding site [ion binding]; metal-binding site 272558003240 glycerol binding site [chemical binding]; other site 272558003241 homotetramer interface [polypeptide binding]; other site 272558003242 homodimer interface [polypeptide binding]; other site 272558003243 FBP binding site [chemical binding]; other site 272558003244 protein IIAGlc interface [polypeptide binding]; other site 272558003245 Helix-turn-helix domains; Region: HTH; cl00088 272558003246 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272558003247 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558003248 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558003249 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 272558003250 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558003251 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 272558003252 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 272558003253 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558003254 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558003255 Amino acid permease; Region: AA_permease; cl00524 272558003256 Spore germination protein; Region: Spore_permease; cl15802 272558003257 Spore germination protein; Region: Spore_permease; cl15802 272558003258 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 272558003259 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 272558003260 active site 272558003261 substrate binding site [chemical binding]; other site 272558003262 metal binding site [ion binding]; metal-binding site 272558003263 galactokinase; Provisional; Region: PRK05322 272558003264 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 272558003265 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 272558003266 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272558003267 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 272558003268 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 272558003269 NAD binding site [chemical binding]; other site 272558003270 homodimer interface [polypeptide binding]; other site 272558003271 active site 272558003272 substrate binding site [chemical binding]; other site 272558003273 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 272558003274 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 272558003275 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 272558003276 Domain of unknown function (DUF74); Region: DUF74; cl00426 272558003277 SpoVR like protein; Region: SpoVR; pfam04293 272558003278 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 272558003279 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 272558003280 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 272558003281 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 272558003282 metal binding site [ion binding]; metal-binding site 272558003283 active site 272558003284 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 272558003285 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 272558003286 active site 272558003287 catalytic triad [active] 272558003288 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 272558003289 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 272558003290 metal binding site [ion binding]; metal-binding site 272558003291 active site 272558003292 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558003293 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 272558003294 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 272558003295 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 272558003296 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 272558003297 putative PBP binding loops; other site 272558003298 dimer interface [polypeptide binding]; other site 272558003299 ABC-ATPase subunit interface; other site 272558003300 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558003301 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 272558003302 dimer interface [polypeptide binding]; other site 272558003303 conserved gate region; other site 272558003304 putative PBP binding loops; other site 272558003305 ABC-ATPase subunit interface; other site 272558003306 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 272558003307 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558003308 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558003309 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 272558003310 Histidine kinase; Region: His_kinase; pfam06580 272558003311 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 272558003312 ATP binding site [chemical binding]; other site 272558003313 Mg2+ binding site [ion binding]; other site 272558003314 G-X-G motif; other site 272558003315 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558003316 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 272558003317 active site 272558003318 phosphorylation site [posttranslational modification] 272558003319 intermolecular recognition site; other site 272558003320 dimerization interface [polypeptide binding]; other site 272558003321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558003322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558003323 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 272558003324 Ferritin-like domain; Region: Ferritin; pfam00210 272558003325 ferroxidase diiron center [ion binding]; other site 272558003326 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558003327 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558003328 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 272558003329 Walker A/P-loop; other site 272558003330 ATP binding site [chemical binding]; other site 272558003331 Q-loop/lid; other site 272558003332 ABC transporter signature motif; other site 272558003333 Walker B; other site 272558003334 D-loop; other site 272558003335 H-loop/switch region; other site 272558003336 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558003337 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558003338 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 272558003339 Walker A/P-loop; other site 272558003340 ATP binding site [chemical binding]; other site 272558003341 Q-loop/lid; other site 272558003342 ABC transporter signature motif; other site 272558003343 Walker B; other site 272558003344 D-loop; other site 272558003345 H-loop/switch region; other site 272558003346 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 272558003347 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 272558003348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558003349 homodimer interface [polypeptide binding]; other site 272558003350 catalytic residue [active] 272558003351 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 272558003352 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 272558003353 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 272558003354 dimer interface [polypeptide binding]; other site 272558003355 active site 272558003356 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272558003357 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 272558003358 FAD binding site [chemical binding]; other site 272558003359 homotetramer interface [polypeptide binding]; other site 272558003360 substrate binding pocket [chemical binding]; other site 272558003361 catalytic base [active] 272558003362 AMP-binding domain protein; Validated; Region: PRK08315 272558003363 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558003364 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 272558003365 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558003366 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558003367 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272558003368 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 272558003369 carboxyltransferase (CT) interaction site; other site 272558003370 biotinylation site [posttranslational modification]; other site 272558003371 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 272558003372 active site 272558003373 catalytic residues [active] 272558003374 metal binding site [ion binding]; metal-binding site 272558003375 enoyl-CoA hydratase; Provisional; Region: PRK07657 272558003376 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 272558003377 substrate binding site [chemical binding]; other site 272558003378 oxyanion hole (OAH) forming residues; other site 272558003379 trimer interface [polypeptide binding]; other site 272558003380 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 272558003381 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 272558003382 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 272558003383 acetyl-CoA synthetase; Provisional; Region: PRK00174 272558003384 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 272558003385 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558003386 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272558003387 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 272558003388 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 272558003389 Walker A/P-loop; other site 272558003390 ATP binding site [chemical binding]; other site 272558003391 Q-loop/lid; other site 272558003392 ABC transporter signature motif; other site 272558003393 Walker B; other site 272558003394 D-loop; other site 272558003395 H-loop/switch region; other site 272558003396 TOBE domain; Region: TOBE_2; cl01440 272558003397 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272558003398 Helix-turn-helix domains; Region: HTH; cl00088 272558003399 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558003400 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558003401 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558003402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 272558003403 Protein of unknown function (DUF964); Region: DUF964; cl01483 272558003404 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 272558003405 MatE; Region: MatE; cl10513 272558003406 MatE; Region: MatE; cl10513 272558003407 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558003408 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 272558003409 motif II; other site 272558003410 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558003411 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 272558003412 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 272558003413 FeS/SAM binding site; other site 272558003414 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558003415 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 272558003416 active site 272558003417 phosphorylation site [posttranslational modification] 272558003418 intermolecular recognition site; other site 272558003419 dimerization interface [polypeptide binding]; other site 272558003420 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 272558003421 DNA binding site [nucleotide binding] 272558003422 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 272558003423 dimer interface [polypeptide binding]; other site 272558003424 phosphorylation site [posttranslational modification] 272558003425 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 272558003426 ATP binding site [chemical binding]; other site 272558003427 Mg2+ binding site [ion binding]; other site 272558003428 G-X-G motif; other site 272558003429 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558003430 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 272558003431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003432 Walker A/P-loop; other site 272558003433 ATP binding site [chemical binding]; other site 272558003434 Q-loop/lid; other site 272558003435 ABC transporter signature motif; other site 272558003436 Walker B; other site 272558003437 D-loop; other site 272558003438 H-loop/switch region; other site 272558003439 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558003440 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558003441 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 272558003442 Walker A/P-loop; other site 272558003443 ATP binding site [chemical binding]; other site 272558003444 Q-loop/lid; other site 272558003445 ABC transporter signature motif; other site 272558003446 Walker B; other site 272558003447 D-loop; other site 272558003448 H-loop/switch region; other site 272558003449 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 272558003450 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 272558003451 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 272558003452 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 272558003453 active site 272558003454 dimerization interface [polypeptide binding]; other site 272558003455 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 272558003456 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558003457 putative substrate translocation pore; other site 272558003458 YhzD-like protein; Region: YhzD; pfam14120 272558003459 Predicted transcriptional regulators [Transcription]; Region: COG1725 272558003460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558003461 DNA-binding site [nucleotide binding]; DNA binding site 272558003462 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558003463 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 272558003464 Walker A/P-loop; other site 272558003465 ATP binding site [chemical binding]; other site 272558003466 Q-loop/lid; other site 272558003467 ABC transporter signature motif; other site 272558003468 Walker B; other site 272558003469 D-loop; other site 272558003470 H-loop/switch region; other site 272558003471 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 272558003472 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 272558003473 Walker A/P-loop; other site 272558003474 ATP binding site [chemical binding]; other site 272558003475 Q-loop/lid; other site 272558003476 ABC transporter signature motif; other site 272558003477 Walker B; other site 272558003478 D-loop; other site 272558003479 H-loop/switch region; other site 272558003480 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 272558003481 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558003482 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272558003483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003484 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003485 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558003486 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 272558003487 active site 272558003488 phosphorylation site [posttranslational modification] 272558003489 intermolecular recognition site; other site 272558003490 dimerization interface [polypeptide binding]; other site 272558003491 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 272558003492 DNA binding site [nucleotide binding] 272558003493 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 272558003494 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 272558003495 dimer interface [polypeptide binding]; other site 272558003496 phosphorylation site [posttranslational modification] 272558003497 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 272558003498 ATP binding site [chemical binding]; other site 272558003499 Mg2+ binding site [ion binding]; other site 272558003500 G-X-G motif; other site 272558003501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558003502 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 272558003503 putative substrate translocation pore; other site 272558003504 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 272558003505 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 272558003506 generic binding surface II; other site 272558003507 generic binding surface I; other site 272558003508 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558003509 Sporulation protein YhaL; Region: Spore_YhaL; pfam14147 272558003510 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 272558003511 PPIC-type PPIASE domain; Region: Rotamase; cl08278 272558003512 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 272558003513 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 272558003514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003515 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003516 transcriptional regulator Hpr; Provisional; Region: PRK13777 272558003517 Helix-turn-helix domains; Region: HTH; cl00088 272558003518 YtxH-like protein; Region: YtxH; cl02079 272558003519 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 272558003520 homodimer interface [polypeptide binding]; other site 272558003521 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272558003522 substrate-cofactor binding pocket; other site 272558003523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558003524 catalytic residue [active] 272558003525 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 272558003526 HIT family signature motif; other site 272558003527 catalytic residue [active] 272558003528 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 272558003529 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 272558003530 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 272558003531 Walker A/P-loop; other site 272558003532 ATP binding site [chemical binding]; other site 272558003533 Q-loop/lid; other site 272558003534 ABC transporter signature motif; other site 272558003535 Walker B; other site 272558003536 D-loop; other site 272558003537 H-loop/switch region; other site 272558003538 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 272558003539 EcsC protein family; Region: EcsC; pfam12787 272558003540 LysE type translocator; Region: LysE; cl00565 272558003541 PspA/IM30 family; Region: PspA_IM30; pfam04012 272558003542 Uncharacterized conserved protein [Function unknown]; Region: COG3595 272558003543 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 272558003544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272558003545 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 272558003546 Histidine kinase; Region: HisKA_3; pfam07730 272558003547 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 272558003548 ATP binding site [chemical binding]; other site 272558003549 Mg2+ binding site [ion binding]; other site 272558003550 G-X-G motif; other site 272558003551 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558003552 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 272558003553 active site 272558003554 phosphorylation site [posttranslational modification] 272558003555 intermolecular recognition site; other site 272558003556 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 272558003557 DNA binding residues [nucleotide binding] 272558003558 dimerization interface [polypeptide binding]; other site 272558003559 Transglycosylase; Region: Transgly; cl07896 272558003560 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272558003561 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558003562 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 272558003563 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 272558003564 substrate binding site [chemical binding]; other site 272558003565 active site 272558003566 ferrochelatase; Provisional; Region: PRK12435 272558003567 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 272558003568 C-terminal domain interface [polypeptide binding]; other site 272558003569 active site 272558003570 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 272558003571 active site 272558003572 N-terminal domain interface [polypeptide binding]; other site 272558003573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003574 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 272558003575 Nitronate monooxygenase; Region: NMO; pfam03060 272558003576 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 272558003577 FMN binding site [chemical binding]; other site 272558003578 substrate binding site [chemical binding]; other site 272558003579 putative catalytic residue [active] 272558003580 Probable sporulation protein (Bac_small_yrzI); Region: Bac_small_YrzI; cl09734 272558003581 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558003582 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558003583 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 272558003584 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272558003585 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 272558003586 dimer interface [polypeptide binding]; other site 272558003587 conserved gate region; other site 272558003588 ABC-ATPase subunit interface; other site 272558003589 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272558003590 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 272558003591 Walker A/P-loop; other site 272558003592 ATP binding site [chemical binding]; other site 272558003593 Q-loop/lid; other site 272558003594 ABC transporter signature motif; other site 272558003595 Walker B; other site 272558003596 D-loop; other site 272558003597 H-loop/switch region; other site 272558003598 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 272558003599 GTPase CgtA; Reviewed; Region: obgE; PRK12297 272558003600 GTP1/OBG; Region: GTP1_OBG; pfam01018 272558003601 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 272558003602 G1 box; other site 272558003603 GTP/Mg2+ binding site [chemical binding]; other site 272558003604 Switch I region; other site 272558003605 G2 box; other site 272558003606 G3 box; other site 272558003607 Switch II region; other site 272558003608 G4 box; other site 272558003609 G5 box; other site 272558003610 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 272558003611 hypothetical protein; Provisional; Region: PRK04435 272558003612 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 272558003613 prephenate dehydratase; Provisional; Region: PRK11898 272558003614 Prephenate dehydratase; Region: PDT; pfam00800 272558003615 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 272558003616 putative L-Phe binding site [chemical binding]; other site 272558003617 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 272558003618 Helix-turn-helix domains; Region: HTH; cl00088 272558003619 3H domain; Region: 3H; pfam02829 272558003620 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 272558003621 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272558003622 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558003623 catalytic residue [active] 272558003624 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 272558003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003626 domain; Region: Succ_DH_flav_C; pfam02910 272558003627 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 272558003628 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 272558003629 dimerization interface [polypeptide binding]; other site 272558003630 active site 272558003631 Quinolinate synthetase A protein; Region: NadA; cl00420 272558003632 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 272558003633 putative peptidoglycan binding site; other site 272558003634 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 272558003635 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 272558003636 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 272558003637 Bypass of Forespore C, N terminal; Region: BOFC_N; pfam08977 272558003638 BofC C-terminal domain; Region: BofC_C; pfam08955 272558003639 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272558003640 RuvA N terminal domain; Region: RuvA_N; pfam01330 272558003641 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 272558003642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003643 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272558003644 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 272558003645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272558003646 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 272558003647 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 272558003648 Preprotein translocase subunit; Region: YajC; cl00806 272558003649 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 272558003650 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 272558003651 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 272558003652 transmembrane helices; other site 272558003653 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558003654 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272558003655 MatE; Region: MatE; cl10513 272558003656 MatE; Region: MatE; cl10513 272558003657 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 272558003658 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 272558003659 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 272558003660 Protein export membrane protein; Region: SecD_SecF; cl14618 272558003661 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 272558003662 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 272558003663 Protein export membrane protein; Region: SecD_SecF; cl14618 272558003664 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 272558003665 Cation efflux family; Region: Cation_efflux; cl00316 272558003666 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 272558003667 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272558003668 DHH family; Region: DHH; pfam01368 272558003669 DHHA1 domain; Region: DHHA1; pfam02272 272558003670 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 272558003671 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558003672 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 272558003673 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558003674 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272558003675 synthetase active site [active] 272558003676 NTP binding site [chemical binding]; other site 272558003677 metal binding site [ion binding]; metal-binding site 272558003678 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 272558003679 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 272558003680 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 272558003681 putative active site [active] 272558003682 dimerization interface [polypeptide binding]; other site 272558003683 putative tRNAtyr binding site [nucleotide binding]; other site 272558003684 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558003685 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 272558003686 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 272558003687 flagellar assembly protein H; Validated; Region: fliH; PRK06669 272558003688 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 272558003689 dimer interface [polypeptide binding]; other site 272558003690 conserved gate region; other site 272558003691 putative PBP binding loops; other site 272558003692 ABC-ATPase subunit interface; other site 272558003693 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 272558003694 dimer interface [polypeptide binding]; other site 272558003695 conserved gate region; other site 272558003696 putative PBP binding loops; other site 272558003697 ABC-ATPase subunit interface; other site 272558003698 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 272558003699 conserved cys residue [active] 272558003700 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558003701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003702 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558003703 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272558003704 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 272558003705 Metal-binding active site; metal-binding site 272558003706 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 272558003707 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558003708 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558003709 DNA binding site [nucleotide binding] 272558003710 domain linker motif; other site 272558003711 Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species; Region: PBP1_CcpB_like; cd06286 272558003712 putative dimerization interface [polypeptide binding]; other site 272558003713 putative ligand binding site [chemical binding]; other site 272558003714 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272558003715 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 272558003716 dimer interface [polypeptide binding]; other site 272558003717 motif 1; other site 272558003718 active site 272558003719 motif 2; other site 272558003720 motif 3; other site 272558003721 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 272558003722 anticodon binding site; other site 272558003723 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272558003724 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 272558003725 dimer interface [polypeptide binding]; other site 272558003726 anticodon binding site; other site 272558003727 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 272558003728 homodimer interface [polypeptide binding]; other site 272558003729 motif 1; other site 272558003730 active site 272558003731 motif 2; other site 272558003732 GAD domain; Region: GAD; pfam02938 272558003733 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 272558003734 motif 3; other site 272558003735 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 272558003736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003737 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272558003738 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 272558003739 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 272558003740 putative ATP binding site [chemical binding]; other site 272558003741 putative substrate interface [chemical binding]; other site 272558003742 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 272558003743 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 272558003744 recombination factor protein RarA; Reviewed; Region: PRK13342 272558003745 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 272558003746 Walker A motif; other site 272558003747 ATP binding site [chemical binding]; other site 272558003748 Walker B motif; other site 272558003749 arginine finger; other site 272558003750 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 272558003751 Predicted membrane protein [Function unknown]; Region: COG2364 272558003752 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558003753 Predicted transcriptional regulator [Transcription]; Region: COG1959 272558003754 Helix-turn-helix domains; Region: HTH; cl00088 272558003755 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 272558003756 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272558003757 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558003758 catalytic residue [active] 272558003759 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 272558003760 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 272558003761 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 272558003762 binding surface 272558003763 TPR motif; other site 272558003764 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 272558003765 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 272558003766 binding surface 272558003767 TPR motif; other site 272558003768 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272558003769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558003770 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 272558003771 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 272558003772 Domain of unknown function DUF20; Region: UPF0118; cl00465 272558003773 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272558003774 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 272558003775 motif 1; other site 272558003776 active site 272558003777 motif 2; other site 272558003778 motif 3; other site 272558003779 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272558003780 DHHA1 domain; Region: DHHA1; pfam02272 272558003781 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 272558003782 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 272558003783 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 272558003784 YceG-like family; Region: YceG; pfam02618 272558003785 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 272558003786 dimerization interface [polypeptide binding]; other site 272558003787 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 272558003788 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 272558003789 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 272558003790 S-adenosylmethionine binding site [chemical binding]; other site 272558003791 Peptidase family U32; Region: Peptidase_U32; cl03113 272558003792 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 272558003793 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 272558003794 Peptidase family U32; Region: Peptidase_U32; cl03113 272558003795 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 272558003796 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 272558003797 ATP-binding site [chemical binding]; other site 272558003798 Sugar specificity; other site 272558003799 Pyrimidine base specificity; other site 272558003800 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 272558003801 domain; Region: GreA_GreB_N; pfam03449 272558003802 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272558003803 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 272558003804 Protein of unknown function (DUF2536); Region: DUF2536; pfam10750 272558003805 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272558003806 YrhC-like protein; Region: YrhC; pfam14143 272558003807 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 272558003808 putative active site [active] 272558003809 putative CoA binding site [chemical binding]; other site 272558003810 nudix motif; other site 272558003811 metal binding site [ion binding]; metal-binding site 272558003812 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 272558003813 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 272558003814 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272558003815 sporulation sigma factor SigK; Reviewed; Region: PRK05803 272558003816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558003817 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 272558003818 DNA binding residues [nucleotide binding] 272558003819 Domain of unknown function (DUF955); Region: DUF955; cl01076 272558003820 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272558003821 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 272558003822 non-specific DNA binding site [nucleotide binding]; other site 272558003823 salt bridge; other site 272558003824 sequence-specific DNA binding site [nucleotide binding]; other site 272558003825 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558003826 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 272558003827 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 272558003828 active site 272558003829 metal binding site [ion binding]; metal-binding site 272558003830 Sporulation related domain; Region: SPOR; cl10051 272558003831 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003832 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272558003833 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003834 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003835 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003836 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272558003837 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003838 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558003839 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 272558003840 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 272558003841 active site 272558003842 metal binding site [ion binding]; metal-binding site 272558003843 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 272558003844 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558003845 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558003846 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558003847 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558003848 Putative catalytic NodB homology domain of uncharacterized BH1302 protein from Bacillus halodurans and its bacterial homologs; Region: CE4_BH1302_like; cd10956 272558003849 NodB motif; other site 272558003850 putative active site [active] 272558003851 putative catalytic site [active] 272558003852 putative Zn binding site [ion binding]; other site 272558003853 Chitin binding domain; Region: Chitin_bind_3; cl03871 272558003854 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 272558003855 chitin/cellulose binding site [chemical binding]; other site 272558003856 Sporulation inhibitor A; Region: Sda; pfam08970 272558003857 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 272558003858 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 272558003859 tetramer interface [polypeptide binding]; other site 272558003860 heme binding pocket [chemical binding]; other site 272558003861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003862 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003863 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 272558003864 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 272558003865 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 272558003866 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 272558003867 IHF dimer interface [polypeptide binding]; other site 272558003868 IHF - DNA interface [nucleotide binding]; other site 272558003869 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272558003870 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272558003871 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 272558003872 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 272558003873 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 272558003874 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 272558003875 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 272558003876 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272558003877 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272558003878 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272558003879 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 272558003880 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 272558003881 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 272558003882 Sporulation inhibitor A; Region: Sda; pfam08970 272558003883 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 272558003884 active site 272558003885 motif I; other site 272558003886 motif II; other site 272558003887 GTPase YqeH; Provisional; Region: PRK13796 272558003888 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 272558003889 GTP/Mg2+ binding site [chemical binding]; other site 272558003890 G4 box; other site 272558003891 G5 box; other site 272558003892 G1 box; other site 272558003893 Switch I region; other site 272558003894 G2 box; other site 272558003895 G3 box; other site 272558003896 Switch II region; other site 272558003897 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 272558003898 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272558003899 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272558003900 shikimate binding site; other site 272558003901 NAD(P) binding site [chemical binding]; other site 272558003902 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 272558003903 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 272558003904 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 272558003905 active site 272558003906 (T/H)XGH motif; other site 272558003907 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 272558003908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558003909 Zn2+ binding site [ion binding]; other site 272558003910 Mg2+ binding site [ion binding]; other site 272558003911 Oligomerisation domain; Region: Oligomerisation; cl00519 272558003912 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 272558003913 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 272558003914 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 272558003915 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 272558003916 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 272558003917 S-adenosylmethionine binding site [chemical binding]; other site 272558003918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558003919 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 272558003920 Protein of unknown function (DUF2533); Region: DUF2533; pfam10752 272558003921 SLBB domain; Region: SLBB; pfam10531 272558003922 comEA protein; Region: comE; TIGR01259 272558003923 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 272558003924 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 272558003925 catalytic motif [active] 272558003926 Zn binding site [ion binding]; other site 272558003927 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 272558003928 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 272558003929 Competence protein; Region: Competence; cl00471 272558003930 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558003931 YqzM-like protein; Region: YqzM; pfam14141 272558003932 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 272558003933 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 272558003934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003935 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003936 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 272558003937 Germination protease; Region: Peptidase_A25; cl04057 272558003938 GTP-binding protein LepA; Provisional; Region: PRK05433 272558003939 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 272558003940 G1 box; other site 272558003941 putative GEF interaction site [polypeptide binding]; other site 272558003942 GTP/Mg2+ binding site [chemical binding]; other site 272558003943 Switch I region; other site 272558003944 G2 box; other site 272558003945 G3 box; other site 272558003946 Switch II region; other site 272558003947 G4 box; other site 272558003948 G5 box; other site 272558003949 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 272558003950 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 272558003951 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272558003952 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 272558003953 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 272558003954 FeS/SAM binding site; other site 272558003955 HemN C-terminal region; Region: HemN_C; pfam06969 272558003956 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 272558003957 Helix-turn-helix domains; Region: HTH; cl00088 272558003958 HrcA protein C terminal domain; Region: HrcA; pfam01628 272558003959 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 272558003960 dimer interface [polypeptide binding]; other site 272558003961 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272558003962 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272558003963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558003964 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558003965 chaperone protein DnaJ; Provisional; Region: PRK14287 272558003966 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 272558003967 HSP70 interaction site [polypeptide binding]; other site 272558003968 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 272558003969 substrate binding site [polypeptide binding]; other site 272558003970 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272558003971 Zn binding sites [ion binding]; other site 272558003972 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272558003973 dimer interface [polypeptide binding]; other site 272558003974 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 272558003975 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 272558003976 S-adenosylmethionine binding site [chemical binding]; other site 272558003977 RNA methyltransferase, RsmE family; Region: TIGR00046 272558003978 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 272558003979 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 272558003980 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272558003981 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 272558003982 FeS/SAM binding site; other site 272558003983 TRAM domain; Region: TRAM; cl01282 272558003984 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 272558003985 intersubunit interface [polypeptide binding]; other site 272558003986 active site 272558003987 catalytic residue [active] 272558003988 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 272558003989 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272558003990 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272558003991 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 272558003992 GatB domain; Region: GatB_Yqey; cl11497 272558003993 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 272558003994 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 272558003995 dimer interface [polypeptide binding]; other site 272558003996 active site residues [active] 272558003997 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 272558003998 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 272558003999 YabP family; Region: YabP; cl06766 272558004000 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 272558004001 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 272558004002 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 272558004003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004004 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 272558004005 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 272558004006 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558004007 Zn2+ binding site [ion binding]; other site 272558004008 Mg2+ binding site [ion binding]; other site 272558004009 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 272558004010 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 272558004011 Protein of unknown function (DUF502); Region: DUF502; cl01107 272558004012 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 272558004013 active site 272558004014 catalytic motif [active] 272558004015 Zn binding site [ion binding]; other site 272558004016 GTPase Era; Reviewed; Region: era; PRK00089 272558004017 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 272558004018 G1 box; other site 272558004019 GTP/Mg2+ binding site [chemical binding]; other site 272558004020 Switch I region; other site 272558004021 G2 box; other site 272558004022 Switch II region; other site 272558004023 G3 box; other site 272558004024 G4 box; other site 272558004025 G5 box; other site 272558004026 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 272558004027 YqzL-like protein; Region: YqzL; pfam14006 272558004028 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 272558004029 Recombination protein O N terminal; Region: RecO_N; cl15812 272558004030 Recombination protein O C terminal; Region: RecO_C; pfam02565 272558004031 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 272558004032 dimer interface [polypeptide binding]; other site 272558004033 motif 1; other site 272558004034 active site 272558004035 motif 2; other site 272558004036 motif 3; other site 272558004037 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 272558004038 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272558004039 Helix-turn-helix domains; Region: HTH; cl00088 272558004040 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 272558004041 FOG: CBS domain [General function prediction only]; Region: COG0517 272558004042 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 272558004043 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 272558004044 DNA primase; Validated; Region: dnaG; PRK05667 272558004045 CHC2 zinc finger; Region: zf-CHC2; cl15369 272558004046 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272558004047 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 272558004048 active site 272558004049 metal binding site [ion binding]; metal-binding site 272558004050 interdomain interaction site; other site 272558004051 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 272558004052 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 272558004053 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272558004054 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272558004055 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558004056 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558004057 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 272558004058 DNA binding residues [nucleotide binding] 272558004059 Cytochrome c; Region: Cytochrom_C; cl11414 272558004060 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 272558004061 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272558004062 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272558004063 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272558004064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004065 LytB protein; Region: LYTB; cl00507 272558004066 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 272558004067 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 272558004068 YqfQ-like protein; Region: YqfQ; pfam14181 272558004069 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 272558004070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 272558004071 ATP binding site [chemical binding]; other site 272558004072 Mg++ binding site [ion binding]; other site 272558004073 motif III; other site 272558004074 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 272558004075 nucleotide binding region [chemical binding]; other site 272558004076 ATP-binding site [chemical binding]; other site 272558004077 endonuclease IV; Provisional; Region: PRK01060 272558004078 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 272558004079 AP (apurinic/apyrimidinic) site pocket; other site 272558004080 DNA interaction; other site 272558004081 Metal-binding active site; metal-binding site 272558004082 Protein of unknown function (DUF2624); Region: DUF2624; pfam11116 272558004083 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 272558004084 dimer interface [polypeptide binding]; other site 272558004085 phosphorylation site [posttranslational modification] 272558004086 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 272558004087 ATP binding site [chemical binding]; other site 272558004088 Mg2+ binding site [ion binding]; other site 272558004089 G-X-G motif; other site 272558004090 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272558004091 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 272558004092 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 272558004093 ABC-ATPase subunit interface; other site 272558004094 dimer interface [polypeptide binding]; other site 272558004095 putative PBP binding regions; other site 272558004096 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 272558004097 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272558004098 catalytic residue [active] 272558004099 polyphosphate kinase; Provisional; Region: PRK05443 272558004100 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 272558004101 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 272558004102 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 272558004103 putative domain interface [polypeptide binding]; other site 272558004104 putative active site [active] 272558004105 catalytic site [active] 272558004106 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 272558004107 putative domain interface [polypeptide binding]; other site 272558004108 putative active site [active] 272558004109 catalytic site [active] 272558004110 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 272558004111 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 272558004112 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272558004113 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 272558004114 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 272558004115 ABC-ATPase subunit interface; other site 272558004116 dimer interface [polypeptide binding]; other site 272558004117 putative PBP binding regions; other site 272558004118 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272558004119 metal binding site 2 [ion binding]; metal-binding site 272558004120 putative DNA binding helix; other site 272558004121 metal binding site 1 [ion binding]; metal-binding site 272558004122 dimer interface [polypeptide binding]; other site 272558004123 structural Zn2+ binding site [ion binding]; other site 272558004124 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 272558004125 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558004126 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 272558004127 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272558004128 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 272558004129 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 272558004130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558004131 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 272558004132 Predicted secreted protein [Function unknown]; Region: COG4086 272558004133 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 272558004134 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 272558004135 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 272558004136 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272558004137 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 272558004138 PhoU domain; Region: PhoU; pfam01895 272558004139 PhoU domain; Region: PhoU; pfam01895 272558004140 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558004141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558004142 Coenzyme A binding pocket [chemical binding]; other site 272558004143 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272558004144 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272558004145 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272558004146 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 272558004147 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558004148 putative substrate translocation pore; other site 272558004149 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272558004150 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558004151 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558004152 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558004153 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004154 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558004155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 272558004156 Uncharacterized conserved protein [Function unknown]; Region: COG1543 272558004157 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 272558004158 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 272558004159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558004160 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 272558004161 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 272558004162 active site 272558004163 Substrate binding site; other site 272558004164 Mg++ binding site; other site 272558004165 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272558004166 Integral membrane protein DUF92; Region: DUF92; cl00793 272558004167 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 272558004168 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 272558004169 ATP binding site [chemical binding]; other site 272558004170 substrate interface [chemical binding]; other site 272558004171 Rhomboid family; Region: Rhomboid; cl11446 272558004172 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 272558004173 TPR motif; other site 272558004174 TPR repeat; Region: TPR_11; pfam13414 272558004175 binding surface 272558004176 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558004177 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 272558004178 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558004179 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 272558004180 Aspartase; Region: Aspartase; cd01357 272558004181 active sites [active] 272558004182 tetramer interface [polypeptide binding]; other site 272558004183 Transposase domain (DUF772); Region: DUF772; cl15789 272558004184 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558004185 Transposase domain (DUF772); Region: DUF772; cl15789 272558004186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004187 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272558004188 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 272558004189 thiamine phosphate binding site [chemical binding]; other site 272558004190 active site 272558004191 pyrophosphate binding site [ion binding]; other site 272558004192 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 272558004193 thiS-thiF/thiG interaction site; other site 272558004194 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 272558004195 ThiS interaction site; other site 272558004196 putative active site [active] 272558004197 tetramer interface [polypeptide binding]; other site 272558004198 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272558004199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004200 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 272558004201 dimer interface [polypeptide binding]; other site 272558004202 substrate binding site [chemical binding]; other site 272558004203 ATP binding site [chemical binding]; other site 272558004204 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 272558004205 Domain of unknown function DUF77; Region: DUF77; cl00307 272558004206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558004207 Coenzyme A binding pocket [chemical binding]; other site 272558004208 hypothetical protein; Provisional; Region: PRK13679 272558004209 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 272558004210 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 272558004211 Putative esterase; Region: Esterase; pfam00756 272558004212 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 272558004213 tetramer interfaces [polypeptide binding]; other site 272558004214 binuclear metal-binding site [ion binding]; other site 272558004215 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 272558004216 non-specific DNA binding site [nucleotide binding]; other site 272558004217 salt bridge; other site 272558004218 sequence-specific DNA binding site [nucleotide binding]; other site 272558004219 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 272558004220 non-specific DNA binding site [nucleotide binding]; other site 272558004221 salt bridge; other site 272558004222 sequence-specific DNA binding site [nucleotide binding]; other site 272558004223 fumarate hydratase; Reviewed; Region: fumC; PRK00485 272558004224 Class II fumarases; Region: Fumarase_classII; cd01362 272558004225 active site 272558004226 tetramer interface [polypeptide binding]; other site 272558004227 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 272558004228 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 272558004229 Nucleoside recognition; Region: Gate; cl00486 272558004230 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 272558004231 SelR domain; Region: SelR; cl00369 272558004232 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272558004233 Sporulation inhibitor A; Region: Sda; pfam08970 272558004234 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 272558004235 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558004236 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558004237 Spore germination protein; Region: Spore_permease; cl15802 272558004238 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558004239 BCCT family transporter; Region: BCCT; cl00569 272558004240 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272558004241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272558004242 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 272558004243 substrate binding pocket [chemical binding]; other site 272558004244 membrane-bound complex binding site; other site 272558004245 hinge residues; other site 272558004246 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272558004247 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 272558004248 dimer interface [polypeptide binding]; other site 272558004249 conserved gate region; other site 272558004250 putative PBP binding loops; other site 272558004251 ABC-ATPase subunit interface; other site 272558004252 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272558004253 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 272558004254 Walker A/P-loop; other site 272558004255 ATP binding site [chemical binding]; other site 272558004256 Q-loop/lid; other site 272558004257 ABC transporter signature motif; other site 272558004258 Walker B; other site 272558004259 D-loop; other site 272558004260 H-loop/switch region; other site 272558004261 Predicted membrane protein [Function unknown]; Region: COG4129 272558004262 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 272558004263 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 272558004264 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 272558004265 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 272558004266 NADP binding site [chemical binding]; other site 272558004267 dimer interface [polypeptide binding]; other site 272558004268 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558004269 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 272558004270 dimer interface [polypeptide binding]; other site 272558004271 substrate binding site [chemical binding]; other site 272558004272 metal binding site [ion binding]; metal-binding site 272558004273 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 272558004274 peptidase T-like protein; Region: PepT-like; TIGR01883 272558004275 metal binding site [ion binding]; metal-binding site 272558004276 putative dimer interface [polypeptide binding]; other site 272558004277 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 272558004278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004279 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558004280 DNA polymerase IV; Validated; Region: PRK01810 272558004281 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 272558004282 active site 272558004283 DNA binding site [nucleotide binding] 272558004284 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004285 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558004286 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272558004287 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 272558004288 Flagellar protein FliS; Region: FliS; cl00654 272558004289 flagellin; Provisional; Region: PRK12806 272558004290 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272558004291 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272558004292 Protein of unknown function (DUF327); Region: DUF327; cl00753 272558004293 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 272558004294 putative hydrophobic ligand binding site [chemical binding]; other site 272558004295 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 272558004296 active site 272558004297 FMN binding site [chemical binding]; other site 272558004298 substrate binding site [chemical binding]; other site 272558004299 homotetramer interface [polypeptide binding]; other site 272558004300 catalytic residue [active] 272558004301 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 272558004302 FOG: CBS domain [General function prediction only]; Region: COG0517 272558004303 Uncharacterized conserved protein [Function unknown]; Region: COG3595 272558004304 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 272558004305 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 272558004306 Active Sites [active] 272558004307 ATP-sulfurylase; Region: ATPS; cd00517 272558004308 active site 272558004309 HXXH motif; other site 272558004310 flexible loop; other site 272558004311 Phosphate transporter family; Region: PHO4; cl00396 272558004312 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 272558004313 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 272558004314 ligand-binding site [chemical binding]; other site 272558004315 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 272558004316 active site 272558004317 catalytic triad [active] 272558004318 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 272558004319 NodB motif; other site 272558004320 putative active site [active] 272558004321 Zn binding site [ion binding]; other site 272558004322 putative catalytic site [active] 272558004323 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272558004324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004325 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272558004326 DNA binding residues [nucleotide binding] 272558004327 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed; Region: PRK07168 272558004328 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272558004329 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 272558004330 active site 272558004331 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 272558004332 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 272558004333 putative active site [active] 272558004334 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 272558004335 putative active site [active] 272558004336 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 272558004337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004338 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558004339 aspartate kinase; Reviewed; Region: PRK09034 272558004340 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 272558004341 putative catalytic residues [active] 272558004342 putative nucleotide binding site [chemical binding]; other site 272558004343 putative aspartate binding site [chemical binding]; other site 272558004344 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 272558004345 allosteric regulatory residue; other site 272558004346 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 272558004347 Ion transport protein; Region: Ion_trans; pfam00520 272558004348 Predicted transcriptional regulator [Transcription]; Region: COG2378 272558004349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004350 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 272558004351 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 272558004352 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 272558004353 putative catalytic cysteine [active] 272558004354 gamma-glutamyl kinase; Provisional; Region: PRK05429 272558004355 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 272558004356 nucleotide binding site [chemical binding]; other site 272558004357 homotetrameric interface [polypeptide binding]; other site 272558004358 putative phosphate binding site [ion binding]; other site 272558004359 putative allosteric binding site; other site 272558004360 PUA domain; Region: PUA; cl00607 272558004361 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 272558004362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004363 NAD(P) binding site [chemical binding]; other site 272558004364 active site 272558004365 YqzH-like protein; Region: YqzH; pfam14164 272558004366 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 272558004367 active site 272558004368 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 272558004369 dimer interface [polypeptide binding]; other site 272558004370 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 272558004371 Ligand Binding Site [chemical binding]; other site 272558004372 Molecular Tunnel; other site 272558004373 Domain of unknown function (DUF4077); Region: DUF4077; pfam13295 272558004374 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558004375 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272558004376 dimer interface [polypeptide binding]; other site 272558004377 putative CheW interface [polypeptide binding]; other site 272558004378 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 272558004379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004380 NAD(P) binding site [chemical binding]; other site 272558004381 active site 272558004382 short chain dehydrogenase; Provisional; Region: PRK06701 272558004383 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 272558004384 NAD binding site [chemical binding]; other site 272558004385 metal binding site [ion binding]; metal-binding site 272558004386 active site 272558004387 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 272558004388 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558004389 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 272558004390 HPr interaction site; other site 272558004391 glycerol kinase (GK) interaction site [polypeptide binding]; other site 272558004392 active site 272558004393 phosphorylation site [posttranslational modification] 272558004394 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558004395 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558004396 DNA binding site [nucleotide binding] 272558004397 domain linker motif; other site 272558004398 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 272558004399 ligand binding site [chemical binding]; other site 272558004400 dimerization interface [polypeptide binding]; other site 272558004401 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 272558004402 Predicted permease; Region: DUF318; cl00487 272558004403 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272558004404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004405 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272558004406 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272558004407 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 272558004408 NAD(P) binding site [chemical binding]; other site 272558004409 putative active site [active] 272558004410 Bacitracin resistance protein BacA; Region: BacA; cl00858 272558004411 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 272558004412 catalytic residues [active] 272558004413 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 272558004414 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 272558004415 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 272558004416 dimer interface [polypeptide binding]; other site 272558004417 ADP-ribose binding site [chemical binding]; other site 272558004418 active site 272558004419 nudix motif; other site 272558004420 metal binding site [ion binding]; metal-binding site 272558004421 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 272558004422 Integral membrane protein DUF95; Region: DUF95; cl00572 272558004423 ferric uptake regulator; Provisional; Region: fur; PRK09462 272558004424 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 272558004425 metal binding site 2 [ion binding]; metal-binding site 272558004426 putative DNA binding helix; other site 272558004427 metal binding site 1 [ion binding]; metal-binding site 272558004428 dimer interface [polypeptide binding]; other site 272558004429 structural Zn2+ binding site [ion binding]; other site 272558004430 Protein of unknown function (DUF4227); Region: DUF4227; pfam14004 272558004431 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 272558004432 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 272558004433 Int/Topo IB signature motif; other site 272558004434 active site 272558004435 Sulfatase; Region: Sulfatase; cl10460 272558004436 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 272558004437 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272558004438 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272558004439 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 272558004440 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272558004441 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272558004442 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 272558004443 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 272558004444 putative hydrophobic ligand binding site [chemical binding]; other site 272558004445 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272558004446 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558004447 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272558004448 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 272558004449 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 272558004450 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 272558004451 ATP binding site [chemical binding]; other site 272558004452 Mg2+ binding site [ion binding]; other site 272558004453 G-X-G motif; other site 272558004454 sporulation sigma factor SigF; Validated; Region: PRK05572 272558004455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558004456 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558004457 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 272558004458 DNA binding residues [nucleotide binding] 272558004459 SpoVA protein; Region: SpoVA; cl04298 272558004460 stage V sporulation protein AD; Provisional; Region: PRK12404 272558004461 stage V sporulation protein AD; Region: spore_V_AD; TIGR02845 272558004462 SpoVA protein; Region: SpoVA; cl04298 272558004463 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272558004464 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558004465 diaminopimelate decarboxylase; Region: lysA; TIGR01048 272558004466 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 272558004467 active site 272558004468 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272558004469 substrate binding site [chemical binding]; other site 272558004470 catalytic residues [active] 272558004471 dimer interface [polypeptide binding]; other site 272558004472 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 272558004473 active site 272558004474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004475 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558004476 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 272558004477 dimer interface [polypeptide binding]; other site 272558004478 phosphorylation site [posttranslational modification] 272558004479 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 272558004480 ATP binding site [chemical binding]; other site 272558004481 Mg2+ binding site [ion binding]; other site 272558004482 G-X-G motif; other site 272558004483 Response regulator receiver domain; Region: Response_reg; pfam00072 272558004484 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 272558004485 active site 272558004486 phosphorylation site [posttranslational modification] 272558004487 intermolecular recognition site; other site 272558004488 dimerization interface [polypeptide binding]; other site 272558004489 Histidine kinase; Region: His_kinase; pfam06580 272558004490 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 272558004491 ATP binding site [chemical binding]; other site 272558004492 Mg2+ binding site [ion binding]; other site 272558004493 G-X-G motif; other site 272558004494 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558004495 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558004496 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 272558004497 short chain dehydrogenase; Validated; Region: PRK08324 272558004498 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 272558004499 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 272558004500 putative NAD(P) binding site [chemical binding]; other site 272558004501 active site 272558004502 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 272558004503 N- and C-terminal domain interface [polypeptide binding]; other site 272558004504 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 272558004505 active site 272558004506 catalytic site [active] 272558004507 metal binding site [ion binding]; metal-binding site 272558004508 ATP binding site [chemical binding]; other site 272558004509 carbohydrate binding site [chemical binding]; other site 272558004510 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 272558004511 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272558004512 Helix-turn-helix domains; Region: HTH; cl00088 272558004513 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 272558004514 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272558004515 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 272558004516 catalytic motif [active] 272558004517 Zn binding site [ion binding]; other site 272558004518 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 272558004519 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 272558004520 Lumazine binding domain; Region: Lum_binding; pfam00677 272558004521 Lumazine binding domain; Region: Lum_binding; pfam00677 272558004522 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 272558004523 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 272558004524 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 272558004525 dimerization interface [polypeptide binding]; other site 272558004526 active site 272558004527 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 272558004528 homopentamer interface [polypeptide binding]; other site 272558004529 active site 272558004530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558004531 Coenzyme A binding pocket [chemical binding]; other site 272558004532 Domain of unknown function (DUF309); Region: DUF309; cl00667 272558004533 ScpA/B protein; Region: ScpA_ScpB; cl00598 272558004534 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 272558004535 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272558004536 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 272558004537 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 272558004538 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272558004539 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272558004540 Sulfatase; Region: Sulfatase; cl10460 272558004541 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558004542 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 272558004543 SpoVA protein; Region: SpoVA; cl04298 272558004544 stage V sporulation protein AD; Provisional; Region: PRK12404 272558004545 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 272558004546 SpoVA protein; Region: SpoVA; cl04298 272558004547 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 272558004548 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558004549 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 272558004550 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272558004551 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 272558004552 Nucleoside recognition; Region: Gate; cl00486 272558004553 Nucleoside recognition; Region: Gate; cl00486 272558004554 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272558004555 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 272558004556 RNA binding surface [nucleotide binding]; other site 272558004557 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 272558004558 active site 272558004559 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 272558004560 catalytic residues [active] 272558004561 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 272558004562 ResB-like family; Region: ResB; pfam05140 272558004563 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272558004564 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272558004565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558004566 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 272558004567 active site 272558004568 phosphorylation site [posttranslational modification] 272558004569 intermolecular recognition site; other site 272558004570 dimerization interface [polypeptide binding]; other site 272558004571 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 272558004572 DNA binding site [nucleotide binding] 272558004573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272558004574 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 272558004575 dimerization interface [polypeptide binding]; other site 272558004576 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 272558004577 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 272558004578 dimer interface [polypeptide binding]; other site 272558004579 phosphorylation site [posttranslational modification] 272558004580 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 272558004581 ATP binding site [chemical binding]; other site 272558004582 Mg2+ binding site [ion binding]; other site 272558004583 G-X-G motif; other site 272558004584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558004585 Coenzyme A binding pocket [chemical binding]; other site 272558004586 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272558004587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558004588 Coenzyme A binding pocket [chemical binding]; other site 272558004589 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 272558004590 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272558004591 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 272558004592 putative binding site residues; other site 272558004593 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272558004594 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 272558004595 dimer interface [polypeptide binding]; other site 272558004596 ABC-ATPase subunit interface; other site 272558004597 putative PBP binding regions; other site 272558004598 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558004599 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 272558004600 Walker A/P-loop; other site 272558004601 ATP binding site [chemical binding]; other site 272558004602 Q-loop/lid; other site 272558004603 ABC transporter signature motif; other site 272558004604 Walker B; other site 272558004605 D-loop; other site 272558004606 H-loop/switch region; other site 272558004607 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 272558004608 CobD/Cbib protein; Region: CobD_Cbib; cl00561 272558004609 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 272558004610 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 272558004611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004612 homodimer interface [polypeptide binding]; other site 272558004613 catalytic residue [active] 272558004614 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 272558004615 homotrimer interface [polypeptide binding]; other site 272558004616 Walker A motif; other site 272558004617 GTP binding site [chemical binding]; other site 272558004618 Walker B motif; other site 272558004619 cobyric acid synthase; Provisional; Region: PRK00784 272558004620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004622 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 272558004623 catalytic triad [active] 272558004624 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 272558004625 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 272558004626 catalytic core [active] 272558004627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004628 Walker A motif; other site 272558004629 ATP binding site [chemical binding]; other site 272558004630 Walker B motif; other site 272558004631 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 272558004632 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 272558004633 VanW like protein; Region: VanW; pfam04294 272558004634 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558004635 Spore germination protein; Region: Spore_permease; cl15802 272558004636 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558004637 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558004638 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 272558004639 putative peptidoglycan binding site; other site 272558004640 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 272558004641 putative peptidoglycan binding site; other site 272558004642 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 272558004643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004644 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 272558004645 putative L-serine binding site [chemical binding]; other site 272558004646 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 272558004647 putative peptidoglycan binding site; other site 272558004648 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 272558004649 putative active site [active] 272558004650 Zn binding site [ion binding]; other site 272558004651 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 272558004652 dimer interface [polypeptide binding]; other site 272558004653 substrate binding site [chemical binding]; other site 272558004654 metal binding sites [ion binding]; metal-binding site 272558004655 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 272558004656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 272558004657 RQC domain; Region: RQC; cl09632 272558004658 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 272558004659 ATP binding site [chemical binding]; other site 272558004660 putative Mg++ binding site [ion binding]; other site 272558004661 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 272558004662 Superfamily II helicase [General function prediction only]; Region: COG1204 272558004663 nucleotide binding region [chemical binding]; other site 272558004664 ATP-binding site [chemical binding]; other site 272558004665 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272558004666 Protein of unknown function (DUF2663); Region: DUF2663; pfam10864 272558004667 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 272558004668 dimerization interface [polypeptide binding]; other site 272558004669 putative catalytic residue [active] 272558004670 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 272558004671 amidohydrolase; Region: amidohydrolases; TIGR01891 272558004672 metal binding site [ion binding]; metal-binding site 272558004673 dimer interface [polypeptide binding]; other site 272558004674 DinB superfamily; Region: DinB_2; cl00986 272558004675 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558004676 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272558004677 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558004678 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 272558004679 DNA binding residues [nucleotide binding] 272558004680 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272558004681 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272558004682 putative active site [active] 272558004683 putative metal binding site [ion binding]; other site 272558004684 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 272558004685 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 272558004686 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272558004687 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558004688 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272558004689 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558004690 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272558004691 NAD(P) binding site [chemical binding]; other site 272558004692 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 272558004693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004694 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558004695 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 272558004696 active site 272558004697 homotetramer interface [polypeptide binding]; other site 272558004698 homodimer interface [polypeptide binding]; other site 272558004699 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 272558004700 cystathionine gamma-synthase; Reviewed; Region: PRK08247 272558004701 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 272558004702 homodimer interface [polypeptide binding]; other site 272558004703 substrate-cofactor binding pocket; other site 272558004704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004705 catalytic residue [active] 272558004706 cystathionine beta-lyase; Provisional; Region: PRK08064 272558004707 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 272558004708 homodimer interface [polypeptide binding]; other site 272558004709 substrate-cofactor binding pocket; other site 272558004710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004711 catalytic residue [active] 272558004712 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 272558004713 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272558004714 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 272558004715 FAD binding site [chemical binding]; other site 272558004716 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 272558004717 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 272558004718 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 272558004719 substrate binding pocket [chemical binding]; other site 272558004720 dimer interface [polypeptide binding]; other site 272558004721 inhibitor binding site; inhibition site 272558004722 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 272558004723 B12 binding site [chemical binding]; other site 272558004724 cobalt ligand [ion binding]; other site 272558004725 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 272558004726 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558004727 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272558004728 germination protein YpeB; Region: spore_YpeB; TIGR02889 272558004729 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 272558004730 Flagellar protein YcgR; Region: YcgR_2; pfam12945 272558004731 PilZ domain; Region: PilZ; cl01260 272558004732 cytidylate kinase; Provisional; Region: cmk; PRK00023 272558004733 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 272558004734 CMP-binding site; other site 272558004735 The sites determining sugar specificity; other site 272558004736 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272558004737 putative acyl-acceptor binding pocket; other site 272558004738 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 272558004739 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 272558004740 RNA binding site [nucleotide binding]; other site 272558004741 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 272558004742 RNA binding site [nucleotide binding]; other site 272558004743 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 272558004744 RNA binding site [nucleotide binding]; other site 272558004745 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 272558004746 RNA binding site [nucleotide binding]; other site 272558004747 GTP-binding protein Der; Reviewed; Region: PRK00093 272558004748 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 272558004749 G1 box; other site 272558004750 GTP/Mg2+ binding site [chemical binding]; other site 272558004751 Switch I region; other site 272558004752 G2 box; other site 272558004753 Switch II region; other site 272558004754 G3 box; other site 272558004755 G4 box; other site 272558004756 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 272558004757 G1 box; other site 272558004758 GTP/Mg2+ binding site [chemical binding]; other site 272558004759 Switch I region; other site 272558004760 G2 box; other site 272558004761 G3 box; other site 272558004762 Switch II region; other site 272558004763 G4 box; other site 272558004764 G5 box; other site 272558004765 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 272558004766 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272558004767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004768 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272558004769 Stage VI sporulation protein F; Region: SpoVIF; pfam14069 272558004770 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558004771 Protein of unknown function (DUF2768); Region: DUF2768; pfam10966 272558004772 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 272558004773 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 272558004774 homodecamer interface [polypeptide binding]; other site 272558004775 GTP cyclohydrolase I; Provisional; Region: PLN03044 272558004776 active site 272558004777 putative catalytic site residues [active] 272558004778 zinc binding site [ion binding]; other site 272558004779 GTP-CH-I/GFRP interaction surface; other site 272558004780 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 272558004781 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 272558004782 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 272558004783 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 272558004784 S-adenosylmethionine binding site [chemical binding]; other site 272558004785 UbiA prenyltransferase family; Region: UbiA; cl00337 272558004786 aromatic acid decarboxylase; Validated; Region: PRK05920 272558004787 Flavoprotein; Region: Flavoprotein; cl08021 272558004788 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 272558004789 NMT1-like family; Region: NMT1_2; cl15260 272558004790 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 272558004791 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272558004792 substrate binding pocket [chemical binding]; other site 272558004793 chain length determination region; other site 272558004794 substrate-Mg2+ binding site; other site 272558004795 catalytic residues [active] 272558004796 aspartate-rich region 1; other site 272558004797 active site lid residues [active] 272558004798 aspartate-rich region 2; other site 272558004799 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 272558004800 active site 272558004801 multimer interface [polypeptide binding]; other site 272558004802 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 272558004803 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 272558004804 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 272558004805 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272558004806 Tetramer interface [polypeptide binding]; other site 272558004807 active site 272558004808 FMN-binding site [chemical binding]; other site 272558004809 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272558004810 active site 272558004811 dimer interface [polypeptide binding]; other site 272558004812 metal binding site [ion binding]; metal-binding site 272558004813 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 272558004814 homotrimer interaction site [polypeptide binding]; other site 272558004815 active site 272558004816 anthranilate synthase component I; Provisional; Region: PRK13569 272558004817 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 272558004818 chorismate binding enzyme; Region: Chorismate_bind; cl10555 272558004819 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 272558004820 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 272558004821 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 272558004822 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 272558004823 active site 272558004824 ribulose/triose binding site [chemical binding]; other site 272558004825 phosphate binding site [ion binding]; other site 272558004826 substrate (anthranilate) binding pocket [chemical binding]; other site 272558004827 product (indole) binding pocket [chemical binding]; other site 272558004828 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 272558004829 active site 272558004830 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 272558004831 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 272558004832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004833 catalytic residue [active] 272558004834 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 272558004835 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 272558004836 substrate binding site [chemical binding]; other site 272558004837 active site 272558004838 catalytic residues [active] 272558004839 heterodimer interface [polypeptide binding]; other site 272558004840 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 272558004841 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 272558004842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004843 homodimer interface [polypeptide binding]; other site 272558004844 catalytic residue [active] 272558004845 prephenate dehydrogenase; Validated; Region: PRK06545 272558004846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004847 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 272558004848 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 272558004849 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272558004850 hinge; other site 272558004851 active site 272558004852 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 272558004853 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 272558004854 binding surface 272558004855 TPR motif; other site 272558004856 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272558004857 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 272558004858 binding surface 272558004859 TPR motif; other site 272558004860 Tetratricopeptide repeat; Region: TPR_16; pfam13432 272558004861 hypothetical protein; Provisional; Region: PRK03636 272558004862 UPF0302 domain; Region: UPF0302; pfam08864 272558004863 IDEAL domain; Region: IDEAL; cl07452 272558004864 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 272558004865 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 272558004866 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 272558004867 iron-sulfur cluster [ion binding]; other site 272558004868 [2Fe-2S] cluster binding site [ion binding]; other site 272558004869 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 272558004870 interchain domain interface [polypeptide binding]; other site 272558004871 intrachain domain interface; other site 272558004872 heme bH binding site [chemical binding]; other site 272558004873 Qi binding site; other site 272558004874 heme bL binding site [chemical binding]; other site 272558004875 Qo binding site; other site 272558004876 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 272558004877 Cytochrome c; Region: Cytochrom_C; cl11414 272558004878 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 272558004879 Sporulation protein YpjB (SpoYpjB); Region: Spore_YpjB; cl09800 272558004880 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 272558004881 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272558004882 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558004883 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558004884 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272558004885 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272558004886 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272558004887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558004888 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272558004889 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 272558004890 active site 272558004891 dimer interfaces [polypeptide binding]; other site 272558004892 catalytic residues [active] 272558004893 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 272558004894 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 272558004895 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 272558004896 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 272558004897 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272558004898 active site 272558004899 NTP binding site [chemical binding]; other site 272558004900 metal binding triad [ion binding]; metal-binding site 272558004901 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272558004902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558004903 Helix-turn-helix domains; Region: HTH; cl00088 272558004904 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272558004905 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 272558004906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004907 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558004908 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 272558004909 oligomerization interface [polypeptide binding]; other site 272558004910 active site 272558004911 metal binding site [ion binding]; metal-binding site 272558004912 pantoate--beta-alanine ligase; Region: panC; TIGR00018 272558004913 Pantoate-beta-alanine ligase; Region: PanC; cd00560 272558004914 active site 272558004915 ATP-binding site [chemical binding]; other site 272558004916 pantoate-binding site; other site 272558004917 HXXH motif; other site 272558004918 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 272558004919 tetramerization interface [polypeptide binding]; other site 272558004920 active site 272558004921 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 272558004922 binding surface 272558004923 TPR motif; other site 272558004924 TPR repeat; Region: TPR_11; pfam13414 272558004925 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 272558004926 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272558004927 active site 272558004928 substrate binding site [chemical binding]; other site 272558004929 catalytic site [active] 272558004930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004931 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004932 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 272558004933 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 272558004934 active site 272558004935 putative substrate binding pocket [chemical binding]; other site 272558004936 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 272558004937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 272558004938 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 272558004939 aspartate aminotransferase; Provisional; Region: PRK05764 272558004940 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 272558004941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004942 homodimer interface [polypeptide binding]; other site 272558004943 catalytic residue [active] 272558004944 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 272558004945 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 272558004946 putative dimer interface [polypeptide binding]; other site 272558004947 putative anticodon binding site; other site 272558004948 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 272558004949 homodimer interface [polypeptide binding]; other site 272558004950 motif 1; other site 272558004951 motif 2; other site 272558004952 active site 272558004953 motif 3; other site 272558004954 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 272558004955 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272558004956 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272558004957 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272558004958 minor groove reading motif; other site 272558004959 helix-hairpin-helix signature motif; other site 272558004960 substrate binding pocket [chemical binding]; other site 272558004961 active site 272558004962 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272558004963 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 272558004964 G1 box; other site 272558004965 GTP/Mg2+ binding site [chemical binding]; other site 272558004966 Switch I region; other site 272558004967 G2 box; other site 272558004968 Switch II region; other site 272558004969 G3 box; other site 272558004970 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 272558004971 G4 box; other site 272558004972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558004973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558004974 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558004975 Transglycosylase; Region: Transgly; cl07896 272558004976 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272558004977 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558004978 Recombination protein U; Region: RecU; cl01314 272558004979 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 272558004980 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 272558004981 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 272558004982 DNA binding residues [nucleotide binding] 272558004983 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 272558004984 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 272558004985 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 272558004986 active site residue [active] 272558004987 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 272558004988 active site residue [active] 272558004989 Predicted membrane protein [Function unknown]; Region: COG2860 272558004990 UPF0126 domain; Region: UPF0126; pfam03458 272558004991 UPF0126 domain; Region: UPF0126; pfam03458 272558004992 threonine dehydratase; Validated; Region: PRK08639 272558004993 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 272558004994 tetramer interface [polypeptide binding]; other site 272558004995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558004996 catalytic residue [active] 272558004997 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 272558004998 putative Ile/Val binding site [chemical binding]; other site 272558004999 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272558005000 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 272558005001 Response regulator receiver domain; Region: Response_reg; pfam00072 272558005002 active site 272558005003 phosphorylation site [posttranslational modification] 272558005004 intermolecular recognition site; other site 272558005005 dimerization interface [polypeptide binding]; other site 272558005006 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558005007 Protein of unknown function (DUF2524); Region: DUF2524; pfam10732 272558005008 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 272558005009 catalytic residues [active] 272558005010 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 272558005011 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 272558005012 catalytic residues [active] 272558005013 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 272558005014 Virulence factor; Region: Virulence_fact; pfam13769 272558005015 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 272558005016 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 272558005017 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 272558005018 Bacterial PH domain; Region: DUF304; cl01348 272558005019 Predicted membrane protein [Function unknown]; Region: COG3428 272558005020 Bacterial membrane flanked domain; Region: DUF304; cl01348 272558005021 Bacterial membrane flanked domain; Region: DUF304; cl01348 272558005022 Bacterial membrane flanked domain; Region: DUF304; cl01348 272558005023 Protein of unknown function (DUF2777); Region: DUF2777; pfam10949 272558005024 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558005025 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 272558005026 NRDE protein; Region: NRDE; cl01315 272558005027 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 272558005028 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 272558005029 active site 272558005030 dimer interface [polypeptide binding]; other site 272558005031 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 272558005032 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 272558005033 active site 272558005034 FMN binding site [chemical binding]; other site 272558005035 substrate binding site [chemical binding]; other site 272558005036 3Fe-4S cluster binding site [ion binding]; other site 272558005037 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 272558005038 domain interface; other site 272558005039 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 272558005040 Kinase associated protein B; Region: KapB; pfam08810 272558005041 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 272558005042 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272558005043 Helix-turn-helix domains; Region: HTH; cl00088 272558005044 cystathionine gamma-synthase; Provisional; Region: PRK08249 272558005045 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 272558005046 homodimer interface [polypeptide binding]; other site 272558005047 substrate-cofactor binding pocket; other site 272558005048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558005049 catalytic residue [active] 272558005050 homoserine dehydrogenase; Provisional; Region: PRK06270 272558005051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005052 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272558005053 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558005054 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 272558005055 NAD(P) binding site [chemical binding]; other site 272558005056 catalytic residues [active] 272558005057 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 272558005058 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272558005059 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 272558005060 active site 272558005061 EamA-like transporter family; Region: EamA; cl01037 272558005062 EamA-like transporter family; Region: EamA; cl01037 272558005063 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272558005064 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272558005065 dimer interface [polypeptide binding]; other site 272558005066 active site 272558005067 catalytic residue [active] 272558005068 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 272558005069 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 272558005070 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558005071 active site 272558005072 motif I; other site 272558005073 motif II; other site 272558005074 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558005075 biotin synthase; Validated; Region: PRK06256 272558005076 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 272558005077 FeS/SAM binding site; other site 272558005078 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 272558005079 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272558005080 endonuclease III; Region: ENDO3c; smart00478 272558005081 minor groove reading motif; other site 272558005082 helix-hairpin-helix signature motif; other site 272558005083 substrate binding pocket [chemical binding]; other site 272558005084 active site 272558005085 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272558005086 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 272558005087 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558005088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558005089 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 272558005090 Walker A/P-loop; other site 272558005091 ATP binding site [chemical binding]; other site 272558005092 Q-loop/lid; other site 272558005093 ABC transporter signature motif; other site 272558005094 Walker B; other site 272558005095 D-loop; other site 272558005096 H-loop/switch region; other site 272558005097 Cytochrome P450; Region: p450; cl12078 272558005098 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558005099 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 272558005100 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558005101 catalytic residue [active] 272558005102 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 272558005103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005104 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272558005105 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 272558005106 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 272558005107 ATP binding site [chemical binding]; other site 272558005108 putative Mg++ binding site [ion binding]; other site 272558005109 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 272558005110 nucleotide binding region [chemical binding]; other site 272558005111 ATP-binding site [chemical binding]; other site 272558005112 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 272558005113 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 272558005114 Inner spore coat protein D; Region: Spore-coat_CotD; pfam11122 272558005115 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 272558005116 cell division protein GpsB; Provisional; Region: PRK14127 272558005117 DivIVA domain; Region: DivI1A_domain; TIGR03544 272558005118 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 272558005119 RNA/DNA hybrid binding site [nucleotide binding]; other site 272558005120 active site 272558005121 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 272558005122 THUMP domain; Region: THUMP; cl12076 272558005123 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 272558005124 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 272558005125 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272558005126 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 272558005127 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272558005128 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 272558005129 putative substrate translocation pore; other site 272558005130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558005131 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 272558005132 active site 272558005133 catalytic site [active] 272558005134 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 272558005135 phosphopeptide binding site; other site 272558005136 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 272558005137 DNA binding site [nucleotide binding] 272558005138 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558005139 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 272558005140 active site 272558005141 metal binding site [ion binding]; metal-binding site 272558005142 Amidinotransferase; Region: Amidinotransf; cl12043 272558005143 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 272558005144 Protein of unknown function (DUF3900); Region: DUF3900; pfam13039 272558005145 Domain of unknown function (DUF3898); Region: DUF3898; pfam13037 272558005146 Permease family; Region: Xan_ur_permease; cl00967 272558005147 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 272558005148 dimer interface [polypeptide binding]; other site 272558005149 putative tRNA-binding site [nucleotide binding]; other site 272558005150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005151 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558005152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558005154 Helix-turn-helix domains; Region: HTH; cl00088 272558005155 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 272558005156 dimerization interface [polypeptide binding]; other site 272558005157 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558005158 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 272558005159 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 272558005160 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 272558005161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558005162 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 272558005163 Protein of unknown function (DUF2515); Region: DUF2515; pfam10720 272558005164 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 272558005165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558005166 Carbon starvation protein CstA; Region: CstA; cl00856 272558005167 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 272558005168 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 272558005169 P loop; other site 272558005170 Nucleotide binding site [chemical binding]; other site 272558005171 DTAP/Switch II; other site 272558005172 Switch I; other site 272558005173 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 272558005174 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558005175 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272558005176 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 272558005177 dimer interface [polypeptide binding]; other site 272558005178 conserved gate region; other site 272558005179 putative PBP binding loops; other site 272558005180 ABC-ATPase subunit interface; other site 272558005181 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272558005182 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 272558005183 dimer interface [polypeptide binding]; other site 272558005184 conserved gate region; other site 272558005185 putative PBP binding loops; other site 272558005186 ABC-ATPase subunit interface; other site 272558005187 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 272558005188 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272558005189 Walker A/P-loop; other site 272558005190 ATP binding site [chemical binding]; other site 272558005191 Q-loop/lid; other site 272558005192 ABC transporter signature motif; other site 272558005193 Walker B; other site 272558005194 D-loop; other site 272558005195 H-loop/switch region; other site 272558005196 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272558005197 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 272558005198 Walker A/P-loop; other site 272558005199 ATP binding site [chemical binding]; other site 272558005200 Q-loop/lid; other site 272558005201 ABC transporter signature motif; other site 272558005202 Walker B; other site 272558005203 D-loop; other site 272558005204 H-loop/switch region; other site 272558005205 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 272558005206 putative ligand binding site [chemical binding]; other site 272558005207 Protein of unknown function (DUF3723); Region: DUF3723; pfam12520 272558005208 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 272558005209 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272558005210 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 272558005211 dimer interface [polypeptide binding]; other site 272558005212 phosphorylation site [posttranslational modification] 272558005213 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 272558005214 ATP binding site [chemical binding]; other site 272558005215 Mg2+ binding site [ion binding]; other site 272558005216 G-X-G motif; other site 272558005217 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 272558005218 putative peptidoglycan binding site; other site 272558005219 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 272558005220 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 272558005221 S-adenosylmethionine binding site [chemical binding]; other site 272558005222 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 272558005223 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 272558005224 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 272558005225 ATP phosphoribosyltransferase; Region: HisG; cl15266 272558005226 Domain of unknown function (DUF477); Region: DUF477; cl01535 272558005227 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558005228 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 272558005229 active site 272558005230 phosphorylation site [posttranslational modification] 272558005231 intermolecular recognition site; other site 272558005232 dimerization interface [polypeptide binding]; other site 272558005233 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 272558005234 DNA binding site [nucleotide binding] 272558005235 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 272558005236 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 272558005237 dimer interface [polypeptide binding]; other site 272558005238 phosphorylation site [posttranslational modification] 272558005239 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 272558005240 ATP binding site [chemical binding]; other site 272558005241 Mg2+ binding site [ion binding]; other site 272558005242 G-X-G motif; other site 272558005243 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 272558005244 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 272558005245 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 272558005246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558005247 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 272558005248 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558005249 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 272558005250 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 272558005251 non-specific DNA binding site [nucleotide binding]; other site 272558005252 salt bridge; other site 272558005253 sequence-specific DNA binding site [nucleotide binding]; other site 272558005254 Predicted transcriptional regulator [Transcription]; Region: COG2378 272558005255 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 272558005256 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 272558005257 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 272558005258 Helix-turn-helix domains; Region: HTH; cl00088 272558005259 Transcriptional regulator [Transcription]; Region: IclR; COG1414 272558005260 Bacterial transcriptional regulator; Region: IclR; pfam01614 272558005261 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 272558005262 LamB/YcsF family; Region: LamB_YcsF; cl00664 272558005263 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 272558005264 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 272558005265 tetramer interface [polypeptide binding]; other site 272558005266 TPP-binding site [chemical binding]; other site 272558005267 heterodimer interface [polypeptide binding]; other site 272558005268 phosphorylation loop region [posttranslational modification] 272558005269 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272558005270 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 272558005271 alpha subunit interface [polypeptide binding]; other site 272558005272 TPP binding site [chemical binding]; other site 272558005273 heterodimer interface [polypeptide binding]; other site 272558005274 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558005275 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272558005276 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 272558005277 E3 interaction surface; other site 272558005278 lipoyl attachment site [posttranslational modification]; other site 272558005279 e3 binding domain; Region: E3_binding; pfam02817 272558005280 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558005281 dihydrolipoamide dehydrogenase; Validated; Region: acoL; PRK06912 272558005282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005283 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558005284 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558005285 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272558005286 GAF domain; Region: GAF; cl00853 272558005287 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 272558005288 Walker A motif; other site 272558005289 ATP binding site [chemical binding]; other site 272558005290 Walker B motif; other site 272558005291 arginine finger; other site 272558005292 Helix-turn-helix domains; Region: HTH; cl00088 272558005293 Cache domain; Region: Cache_1; pfam02743 272558005294 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 272558005295 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 272558005296 dimerization interface [polypeptide binding]; other site 272558005297 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272558005298 dimer interface [polypeptide binding]; other site 272558005299 putative CheW interface [polypeptide binding]; other site 272558005300 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 272558005301 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 272558005302 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 272558005303 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272558005304 NAD binding site [chemical binding]; other site 272558005305 catalytic Zn binding site [ion binding]; other site 272558005306 structural Zn binding site [ion binding]; other site 272558005307 L-lactate permease; Region: Lactate_perm; cl00701 272558005308 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 272558005309 Cysteine-rich domain; Region: CCG; pfam02754 272558005310 Cysteine-rich domain; Region: CCG; pfam02754 272558005311 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 272558005312 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 272558005313 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 272558005314 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 272558005315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558005316 DNA-binding site [nucleotide binding]; DNA binding site 272558005317 FCD domain; Region: FCD; cl11656 272558005318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558005319 Helix-turn-helix domains; Region: HTH; cl00088 272558005320 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558005321 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 272558005322 Alpha/beta hydrolase of unknown function (DUF1100); Region: DUF1100; pfam06500 272558005323 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558005324 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 272558005325 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 272558005326 dimer interface [polypeptide binding]; other site 272558005327 active site 272558005328 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 272558005329 active site 272558005330 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272558005331 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558005332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005333 NAD(P) binding site [chemical binding]; other site 272558005334 active site 272558005335 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272558005336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005337 active site 272558005338 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 272558005339 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 272558005340 dimer interface [polypeptide binding]; other site 272558005341 active site 272558005342 CoA binding pocket [chemical binding]; other site 272558005343 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 272558005344 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558005345 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272558005346 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558005347 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 272558005348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005349 Down-regulated in metastasis; Region: DRIM; pfam07539 272558005350 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 272558005351 substrate binding site [chemical binding]; other site 272558005352 oxyanion hole (OAH) forming residues; other site 272558005353 trimer interface [polypeptide binding]; other site 272558005354 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 272558005355 hypothetical protein; Provisional; Region: PRK06185 272558005356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005358 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 272558005359 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272558005360 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 272558005361 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272558005362 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 272558005363 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 272558005364 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558005365 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558005366 DNA binding site [nucleotide binding] 272558005367 domain linker motif; other site 272558005368 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 272558005369 dimerization interface [polypeptide binding]; other site 272558005370 ligand binding site [chemical binding]; other site 272558005371 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 272558005372 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 272558005373 active site turn [active] 272558005374 phosphorylation site [posttranslational modification] 272558005375 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558005376 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272558005377 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 272558005378 putative substrate binding site [chemical binding]; other site 272558005379 putative ATP binding site [chemical binding]; other site 272558005380 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 272558005381 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 272558005382 substrate binding [chemical binding]; other site 272558005383 active site 272558005384 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 272558005385 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272558005386 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272558005387 active site 272558005388 metal binding site [ion binding]; metal-binding site 272558005389 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 272558005390 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 272558005391 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 272558005392 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 272558005393 active site 272558005394 metal binding site [ion binding]; metal-binding site 272558005395 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558005396 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558005397 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 272558005398 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 272558005399 dimer interface [polypeptide binding]; other site 272558005400 conserved gate region; other site 272558005401 putative PBP binding loops; other site 272558005402 ABC-ATPase subunit interface; other site 272558005403 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558005404 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 272558005405 dimer interface [polypeptide binding]; other site 272558005406 conserved gate region; other site 272558005407 putative PBP binding loops; other site 272558005408 ABC-ATPase subunit interface; other site 272558005409 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 272558005410 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 272558005411 active site 272558005412 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272558005413 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558005414 Predicted transcriptional regulator [Transcription]; Region: COG4189 272558005415 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 272558005416 putative DNA binding site [nucleotide binding]; other site 272558005417 dimerization interface [polypeptide binding]; other site 272558005418 putative Zn2+ binding site [ion binding]; other site 272558005419 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 272558005420 alpha-galactosidase; Region: PLN02899 272558005421 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 272558005422 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 272558005423 intersubunit interface [polypeptide binding]; other site 272558005424 active site 272558005425 Zn2+ binding site [ion binding]; other site 272558005426 ribulokinase; Provisional; Region: PRK04123 272558005427 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 272558005428 putative N- and C-terminal domain interface [polypeptide binding]; other site 272558005429 putative active site [active] 272558005430 putative MgATP binding site [chemical binding]; other site 272558005431 catalytic site [active] 272558005432 metal binding site [ion binding]; metal-binding site 272558005433 carbohydrate binding site [chemical binding]; other site 272558005434 homodimer interface [polypeptide binding]; other site 272558005435 L-arabinose isomerase; Provisional; Region: PRK02929 272558005436 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 272558005437 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 272558005438 trimer interface [polypeptide binding]; other site 272558005439 putative substrate binding site [chemical binding]; other site 272558005440 putative metal binding site [ion binding]; other site 272558005441 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 272558005442 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 272558005443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558005444 DNA-binding site [nucleotide binding]; DNA binding site 272558005445 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558005446 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 272558005447 putative dimerization interface [polypeptide binding]; other site 272558005448 putative ligand binding site [chemical binding]; other site 272558005449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 272558005450 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 272558005451 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272558005452 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 272558005453 substrate binding site [chemical binding]; other site 272558005454 active site 272558005455 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 272558005456 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272558005457 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 272558005458 Walker A motif; other site 272558005459 ATP binding site [chemical binding]; other site 272558005460 Walker B motif; other site 272558005461 arginine finger; other site 272558005462 Uncharacterized conserved protein [Function unknown]; Region: COG3535 272558005463 Protein of unknown function (DUF917); Region: DUF917; pfam06032 272558005464 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 272558005465 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 272558005466 Sodium:solute symporter family; Region: SSF; cl00456 272558005467 Uncharacterized conserved protein [Function unknown]; Region: COG3535 272558005468 Protein of unknown function (DUF917); Region: DUF917; pfam06032 272558005469 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 272558005470 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 272558005471 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 272558005472 synthetase active site [active] 272558005473 NTP binding site [chemical binding]; other site 272558005474 metal binding site [ion binding]; metal-binding site 272558005475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558005476 Helix-turn-helix domains; Region: HTH; cl00088 272558005477 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 272558005478 Predicted transcriptional regulator [Transcription]; Region: COG2378 272558005479 Helix-turn-helix domains; Region: HTH; cl00088 272558005480 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558005481 DinB superfamily; Region: DinB_2; pfam12867 272558005482 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558005483 DinB superfamily; Region: DinB_2; pfam12867 272558005484 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_18; cd04677 272558005485 nudix motif; other site 272558005486 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272558005487 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558005488 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558005489 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558005490 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 272558005491 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 272558005492 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 272558005493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558005494 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 272558005495 catalytic triad [active] 272558005496 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272558005497 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 272558005498 ABC transporter; Region: ABC_tran_2; pfam12848 272558005499 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 272558005500 Transposase domain (DUF772); Region: DUF772; cl12084 272558005501 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272558005502 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 272558005503 stage II sporulation protein P; Region: spore_II_P; TIGR02867 272558005504 Transposase domain (DUF772); Region: DUF772; cl15789 272558005505 putative alpha-glucosidase; Provisional; Region: PRK10658 272558005506 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 272558005507 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 272558005508 active site 272558005509 homotrimer interface [polypeptide binding]; other site 272558005510 catalytic site [active] 272558005511 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 272558005512 Cupin domain; Region: Cupin_2; cl09118 272558005513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005514 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558005515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005516 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558005517 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 272558005518 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 272558005519 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 272558005520 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 272558005521 ligand binding site [chemical binding]; other site 272558005522 metal binding site [ion binding]; metal-binding site 272558005523 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558005524 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 272558005525 dimerization interface [polypeptide binding]; other site 272558005526 Histidine kinase; Region: His_kinase; pfam06580 272558005527 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 272558005528 ATP binding site [chemical binding]; other site 272558005529 Mg2+ binding site [ion binding]; other site 272558005530 G-X-G motif; other site 272558005531 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558005532 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 272558005533 active site 272558005534 phosphorylation site [posttranslational modification] 272558005535 intermolecular recognition site; other site 272558005536 dimerization interface [polypeptide binding]; other site 272558005537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005538 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558005539 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 272558005540 dimer interface [polypeptide binding]; other site 272558005541 conserved gate region; other site 272558005542 putative PBP binding loops; other site 272558005543 ABC-ATPase subunit interface; other site 272558005544 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558005545 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 272558005546 dimer interface [polypeptide binding]; other site 272558005547 conserved gate region; other site 272558005548 ABC-ATPase subunit interface; other site 272558005549 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 272558005550 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 272558005551 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272558005552 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272558005553 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 272558005554 NodB motif; other site 272558005555 active site 272558005556 catalytic site [active] 272558005557 metal binding site [ion binding]; metal-binding site 272558005558 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558005559 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 272558005560 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272558005561 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 272558005562 putative active site [active] 272558005563 heme pocket [chemical binding]; other site 272558005564 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 272558005565 dimer interface [polypeptide binding]; other site 272558005566 phosphorylation site [posttranslational modification] 272558005567 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 272558005568 ATP binding site [chemical binding]; other site 272558005569 Mg2+ binding site [ion binding]; other site 272558005570 G-X-G motif; other site 272558005571 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 272558005572 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 272558005573 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272558005574 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558005575 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 272558005576 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 272558005577 dimer interface [polypeptide binding]; other site 272558005578 conserved gate region; other site 272558005579 putative PBP binding loops; other site 272558005580 ABC-ATPase subunit interface; other site 272558005581 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558005582 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 272558005583 dimer interface [polypeptide binding]; other site 272558005584 conserved gate region; other site 272558005585 putative PBP binding loops; other site 272558005586 ABC-ATPase subunit interface; other site 272558005587 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558005588 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558005589 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558005590 DNA binding site [nucleotide binding] 272558005591 domain linker motif; other site 272558005592 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 272558005593 dimerization interface [polypeptide binding]; other site 272558005594 ligand binding site [chemical binding]; other site 272558005595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558005596 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558005597 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 272558005598 active site 272558005599 catalytic triad [active] 272558005600 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272558005601 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 272558005602 AMP-binding enzyme; Region: AMP-binding; cl15778 272558005603 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558005604 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 272558005605 ThiC-associated domain; Region: ThiC-associated; pfam13667 272558005606 ThiC family; Region: ThiC; cl08031 272558005607 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558005608 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558005609 Spore germination protein; Region: Spore_permease; cl15802 272558005610 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 272558005611 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 272558005612 Proline dehydrogenase; Region: Pro_dh; cl03282 272558005613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558005614 DNA-binding site [nucleotide binding]; DNA binding site 272558005615 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 272558005616 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558005617 homodimer interface [polypeptide binding]; other site 272558005618 catalytic residue [active] 272558005619 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 272558005620 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 272558005621 catalytic residues [active] 272558005622 Uncharacterized conserved protein [Function unknown]; Region: COG3391 272558005623 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 272558005624 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558005625 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 272558005626 active site 272558005627 phosphorylation site [posttranslational modification] 272558005628 intermolecular recognition site; other site 272558005629 dimerization interface [polypeptide binding]; other site 272558005630 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 272558005631 DNA binding site [nucleotide binding] 272558005632 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 272558005633 dimerization interface [polypeptide binding]; other site 272558005634 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 272558005635 dimer interface [polypeptide binding]; other site 272558005636 phosphorylation site [posttranslational modification] 272558005637 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 272558005638 ATP binding site [chemical binding]; other site 272558005639 Mg2+ binding site [ion binding]; other site 272558005640 G-X-G motif; other site 272558005641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558005642 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558005643 MgtE intracellular N domain; Region: MgtE_N; cl15244 272558005644 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 272558005645 Divalent cation transporter; Region: MgtE; cl00786 272558005646 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558005647 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272558005648 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272558005649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005650 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272558005651 NAD(P) binding site [chemical binding]; other site 272558005652 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 272558005653 intersubunit interface [polypeptide binding]; other site 272558005654 active site 272558005655 Zn2+ binding site [ion binding]; other site 272558005656 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 272558005657 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272558005658 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 272558005659 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 272558005660 Sulfatase; Region: Sulfatase; cl10460 272558005661 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 272558005662 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 272558005663 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 272558005664 Helix-turn-helix domain; Region: HTH_18; pfam12833 272558005665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558005666 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 272558005667 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558005668 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 272558005669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558005670 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558005671 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272558005672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558005673 Helix-turn-helix domains; Region: HTH; cl00088 272558005674 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 272558005675 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 272558005676 putative substrate translocation pore; other site 272558005677 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558005678 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558005679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558005680 Coenzyme A binding pocket [chemical binding]; other site 272558005681 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 272558005682 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558005683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005684 Ion channel; Region: Ion_trans_2; cl11596 272558005685 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558005686 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 272558005687 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 272558005688 XdhC Rossmann domain; Region: XdhC_C; pfam13478 272558005689 YIEGIA protein; Region: YIEGIA; pfam14045 272558005690 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 272558005691 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 272558005692 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 272558005693 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 272558005694 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 272558005695 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 272558005696 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 272558005697 catalytic loop [active] 272558005698 iron binding site [ion binding]; other site 272558005699 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 272558005700 hydroperoxidase II; Provisional; Region: katE; PRK11249 272558005701 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 272558005702 tetramer interface [polypeptide binding]; other site 272558005703 heme binding pocket [chemical binding]; other site 272558005704 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 272558005705 domain interactions; other site 272558005706 HutP; Region: HutP; cl07944 272558005707 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 272558005708 active sites [active] 272558005709 tetramer interface [polypeptide binding]; other site 272558005710 urocanate hydratase; Provisional; Region: PRK05414 272558005711 imidazolonepropionase; Validated; Region: PRK09356 272558005712 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 272558005713 active site 272558005714 Arginase family; Region: Arginase; cl00306 272558005715 Predicted permease [General function prediction only]; Region: COG2056 272558005716 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 272558005717 binding surface 272558005718 TPR motif; other site 272558005719 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558005720 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558005721 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558005722 Spore germination protein; Region: Spore_permease; cl15802 272558005723 GAF domain; Region: GAF; cl15785 272558005724 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 272558005725 Helix-turn-helix domains; Region: HTH; cl00088 272558005726 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 272558005727 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 272558005728 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272558005729 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 272558005730 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 272558005731 substrate binding site [chemical binding]; other site 272558005732 oxyanion hole (OAH) forming residues; other site 272558005733 trimer interface [polypeptide binding]; other site 272558005734 putative acyltransferase; Provisional; Region: PRK05790 272558005735 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 272558005736 dimer interface [polypeptide binding]; other site 272558005737 active site 272558005738 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 272558005739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005741 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 272558005742 active site 272558005743 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 272558005744 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272558005745 DinB superfamily; Region: DinB_2; pfam12867 272558005746 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 272558005747 Cupin domain; Region: Cupin_2; cl09118 272558005748 Cupin domain; Region: Cupin_2; cl09118 272558005749 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 272558005750 Cupin domain; Region: Cupin_2; cl09118 272558005751 Cupin domain; Region: Cupin_2; cl09118 272558005752 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 272558005753 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 272558005754 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 272558005755 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558005756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 272558005757 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272558005758 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 272558005759 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 272558005760 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 272558005761 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558005762 NAD(P) binding site [chemical binding]; other site 272558005763 catalytic residues [active] 272558005764 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 272558005765 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 272558005766 catalytic Zn binding site [ion binding]; other site 272558005767 NAD binding site [chemical binding]; other site 272558005768 structural Zn binding site [ion binding]; other site 272558005769 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 272558005770 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558005771 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 272558005772 dimer interface [polypeptide binding]; other site 272558005773 phosphorylation site [posttranslational modification] 272558005774 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 272558005775 ATP binding site [chemical binding]; other site 272558005776 Mg2+ binding site [ion binding]; other site 272558005777 G-X-G motif; other site 272558005778 Response regulator receiver domain; Region: Response_reg; pfam00072 272558005779 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 272558005780 active site 272558005781 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558005782 phosphorylation site [posttranslational modification] 272558005783 intermolecular recognition site; other site 272558005784 dimerization interface [polypeptide binding]; other site 272558005785 Histidine kinase; Region: His_kinase; pfam06580 272558005786 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 272558005787 ATP binding site [chemical binding]; other site 272558005788 Mg2+ binding site [ion binding]; other site 272558005789 G-X-G motif; other site 272558005790 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 272558005791 Collagen binding domain; Region: Collagen_bind; pfam05737 272558005792 Collagen binding domain; Region: Collagen_bind; pfam05737 272558005793 Collagen binding domain; Region: Collagen_bind; pfam05737 272558005794 Collagen binding domain; Region: Collagen_bind; pfam05737 272558005795 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005796 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005797 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005798 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005799 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005800 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005801 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 272558005802 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_5; cd06166 272558005803 active site 272558005804 catalytic site [active] 272558005805 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 272558005806 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 272558005807 active site 272558005808 phosphorylation site [posttranslational modification] 272558005809 intermolecular recognition site; other site 272558005810 dimerization interface [polypeptide binding]; other site 272558005811 Helix-turn-helix domains; Region: HTH; cl00088 272558005812 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 272558005813 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558005814 DNA binding site [nucleotide binding] 272558005815 domain linker motif; other site 272558005816 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 272558005817 putative dimerization interface [polypeptide binding]; other site 272558005818 putative ligand binding site [chemical binding]; other site 272558005819 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 272558005820 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 272558005821 Plant organelle RNA recognition domain; Region: PORR; pfam11955 272558005822 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 272558005823 dimer interface [polypeptide binding]; other site 272558005824 conserved gate region; other site 272558005825 ABC-ATPase subunit interface; other site 272558005826 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 272558005827 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 272558005828 dimer interface [polypeptide binding]; other site 272558005829 conserved gate region; other site 272558005830 putative PBP binding loops; other site 272558005831 ABC-ATPase subunit interface; other site 272558005832 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 272558005833 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 272558005834 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 272558005835 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 272558005836 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 272558005837 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 272558005838 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272558005839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558005840 Walker A/P-loop; other site 272558005841 ATP binding site [chemical binding]; other site 272558005842 Q-loop/lid; other site 272558005843 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 272558005844 ABC transporter; Region: ABC_tran_2; pfam12848 272558005845 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 272558005846 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272558005847 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558005848 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 272558005849 DNA binding residues [nucleotide binding] 272558005850 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 272558005851 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558005852 putative acyltransferase; Provisional; Region: PRK05790 272558005853 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 272558005854 dimer interface [polypeptide binding]; other site 272558005855 active site 272558005856 Permease family; Region: Xan_ur_permease; cl00967 272558005857 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558005858 Protein of unknown function (DUF419); Region: DUF419; cl15265 272558005859 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272558005860 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005861 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005862 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272558005863 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 272558005864 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 272558005865 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272558005866 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 272558005867 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558005868 putative substrate translocation pore; other site 272558005869 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005870 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005871 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272558005872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005874 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005875 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005876 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005877 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005878 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005879 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005880 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005881 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005882 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 272558005883 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 272558005884 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272558005885 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 272558005886 binding surface 272558005887 TPR motif; other site 272558005888 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558005889 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 272558005890 S-adenosylmethionine binding site [chemical binding]; other site 272558005891 DinB superfamily; Region: DinB_2; pfam12867 272558005892 Small acid-soluble spore protein H family; Region: SspH; cl06949 272558005893 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 272558005894 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 272558005895 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 272558005896 putative active site [active] 272558005897 putative catalytic site [active] 272558005898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005899 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272558005900 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 272558005901 S-adenosylmethionine binding site [chemical binding]; other site 272558005902 Protein of unknown function (DUF523); Region: DUF523; cl00733 272558005903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005904 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272558005905 Helix-turn-helix domains; Region: HTH; cl00088 272558005906 Domain of unknown function (DUF4181); Region: DUF4181; pfam13789 272558005907 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 272558005908 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 272558005909 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 272558005910 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 272558005911 D-pathway; other site 272558005912 Putative ubiquinol binding site [chemical binding]; other site 272558005913 Low-spin heme (heme b) binding site [chemical binding]; other site 272558005914 Putative water exit pathway; other site 272558005915 Binuclear center (heme o3/CuB) [ion binding]; other site 272558005916 K-pathway; other site 272558005917 Putative proton exit pathway; other site 272558005918 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 272558005919 Subunit I/III interface [polypeptide binding]; other site 272558005920 Subunit III/IV interface [polypeptide binding]; other site 272558005921 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 272558005922 Domain of unknown function (DUF368); Region: DUF368; cl00893 272558005923 Transposase domain (DUF772); Region: DUF772; cl15789 272558005924 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558005925 Transposase domain (DUF772); Region: DUF772; cl15789 272558005926 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 272558005927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558005928 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 272558005929 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 272558005930 substrate binding site [chemical binding]; other site 272558005931 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558005932 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 272558005933 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 272558005934 dimer interface [polypeptide binding]; other site 272558005935 conserved gate region; other site 272558005936 putative PBP binding loops; other site 272558005937 ABC-ATPase subunit interface; other site 272558005938 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 272558005939 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 272558005940 dimer interface [polypeptide binding]; other site 272558005941 conserved gate region; other site 272558005942 putative PBP binding loops; other site 272558005943 ABC-ATPase subunit interface; other site 272558005944 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 272558005945 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272558005946 Walker A/P-loop; other site 272558005947 ATP binding site [chemical binding]; other site 272558005948 Q-loop/lid; other site 272558005949 ABC transporter signature motif; other site 272558005950 Walker B; other site 272558005951 D-loop; other site 272558005952 H-loop/switch region; other site 272558005953 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272558005954 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 272558005955 Walker A/P-loop; other site 272558005956 ATP binding site [chemical binding]; other site 272558005957 Q-loop/lid; other site 272558005958 ABC transporter signature motif; other site 272558005959 Walker B; other site 272558005960 D-loop; other site 272558005961 H-loop/switch region; other site 272558005962 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 272558005963 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558005964 putative substrate translocation pore; other site 272558005965 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 272558005966 active site 272558005967 catalytic triad [active] 272558005968 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 272558005969 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 272558005970 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558005971 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558005972 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558005973 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_8; cd07246 272558005974 putative dimer interface [polypeptide binding]; other site 272558005975 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558005976 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558005977 DoxX; Region: DoxX; cl00976 272558005978 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 272558005979 putative DNA binding site [nucleotide binding]; other site 272558005980 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 272558005981 Protein of unknown function (DUF419); Region: DUF419; cl15265 272558005982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558005983 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 272558005984 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 272558005985 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 272558005986 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 272558005987 active site residue [active] 272558005988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558005989 MULE transposase domain; Region: MULE; pfam10551 272558005990 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 272558005991 dimerization interface [polypeptide binding]; other site 272558005992 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 272558005993 YvbH-like oligomerisation region; Region: YvbH_ext; pfam11724 272558005994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 272558005995 Histidine kinase; Region: HisKA_3; pfam07730 272558005996 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558005997 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 272558005998 active site 272558005999 phosphorylation site [posttranslational modification] 272558006000 intermolecular recognition site; other site 272558006001 dimerization interface [polypeptide binding]; other site 272558006002 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 272558006003 DNA binding residues [nucleotide binding] 272558006004 dimerization interface [polypeptide binding]; other site 272558006005 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 272558006006 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 272558006007 glutamate dehydrogenase; Provisional; Region: PRK09414 272558006008 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558006009 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 272558006010 NAD(P) binding site [chemical binding]; other site 272558006011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558006012 Helix-turn-helix domains; Region: HTH; cl00088 272558006013 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 272558006014 putative dimerization interface [polypeptide binding]; other site 272558006015 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558006016 Helix-turn-helix domains; Region: HTH; cl00088 272558006017 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558006018 Coenzyme A binding pocket [chemical binding]; other site 272558006019 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 272558006020 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558006021 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558006022 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 272558006023 active site 272558006024 phosphorylation site [posttranslational modification] 272558006025 intermolecular recognition site; other site 272558006026 dimerization interface [polypeptide binding]; other site 272558006027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558006028 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558006029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558006030 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558006031 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 272558006032 Histidine kinase; Region: His_kinase; pfam06580 272558006033 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 272558006034 ATP binding site [chemical binding]; other site 272558006035 Mg2+ binding site [ion binding]; other site 272558006036 G-X-G motif; other site 272558006037 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558006038 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558006039 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 272558006040 dimer interface [polypeptide binding]; other site 272558006041 conserved gate region; other site 272558006042 ABC-ATPase subunit interface; other site 272558006043 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558006044 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 272558006045 dimer interface [polypeptide binding]; other site 272558006046 conserved gate region; other site 272558006047 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 272558006048 ABC-ATPase subunit interface; other site 272558006049 Glycosyl hydrolase family 52; Region: Glyco_hydro_52; pfam03512 272558006050 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 272558006051 putative substrate translocation pore; other site 272558006052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558006053 Helix-turn-helix domains; Region: HTH; cl00088 272558006054 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 272558006055 dimerization interface [polypeptide binding]; other site 272558006056 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 272558006057 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 272558006058 DNA binding residues [nucleotide binding] 272558006059 dimerization interface [polypeptide binding]; other site 272558006060 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272558006061 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 272558006062 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558006063 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558006064 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272558006065 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272558006066 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558006067 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 272558006068 active site 272558006069 phosphorylation site [posttranslational modification] 272558006070 intermolecular recognition site; other site 272558006071 dimerization interface [polypeptide binding]; other site 272558006072 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 272558006073 DNA binding residues [nucleotide binding] 272558006074 dimerization interface [polypeptide binding]; other site 272558006075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558006076 Anti-repressor SinI; Region: SinI; pfam08671 272558006077 Anti-repressor SinI; Region: SinI; pfam08671 272558006078 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_5; cd06166 272558006079 active site 272558006080 catalytic site [active] 272558006081 Camelysin metallo-endopeptidase; Region: Peptidase_M73; cl13780 272558006082 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 272558006083 Catalytic site [active] 272558006084 YqxM protein; Region: YqxM_for_SipW; TIGR04087 272558006085 L-lactate permease; Region: Lactate_perm; cl00701 272558006086 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 272558006087 active site 272558006088 FAD binding domain; Region: FAD_binding_4; pfam01565 272558006089 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 272558006090 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 272558006091 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272558006092 Cysteine-rich domain; Region: CCG; pfam02754 272558006093 Cysteine-rich domain; Region: CCG; pfam02754 272558006094 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 272558006095 FAD binding domain; Region: FAD_binding_4; pfam01565 272558006096 Helix-turn-helix domains; Region: HTH; cl00088 272558006097 Transcriptional regulator [Transcription]; Region: IclR; COG1414 272558006098 Bacterial transcriptional regulator; Region: IclR; pfam01614 272558006099 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 272558006100 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 272558006101 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 272558006102 CAP-like domain; other site 272558006103 active site 272558006104 primary dimer interface [polypeptide binding]; other site 272558006105 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558006106 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558006107 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272558006108 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 272558006109 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 272558006110 ATP binding site [chemical binding]; other site 272558006111 Mg2+ binding site [ion binding]; other site 272558006112 G-X-G motif; other site 272558006113 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 272558006114 anchoring element; other site 272558006115 dimer interface [polypeptide binding]; other site 272558006116 ATP binding site [chemical binding]; other site 272558006117 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 272558006118 active site 272558006119 putative metal-binding site [ion binding]; other site 272558006120 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272558006121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006122 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 272558006123 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 272558006124 active site 272558006125 metal binding site [ion binding]; metal-binding site 272558006126 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 272558006127 short chain dehydrogenase; Provisional; Region: PRK07677 272558006128 NAD(P) binding site [chemical binding]; other site 272558006129 substrate binding site [chemical binding]; other site 272558006130 homotetramer interface [polypeptide binding]; other site 272558006131 active site 272558006132 homodimer interface [polypeptide binding]; other site 272558006133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558006134 Helix-turn-helix domains; Region: HTH; cl00088 272558006135 Predicted membrane protein [Function unknown]; Region: COG1511 272558006136 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 272558006137 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558006138 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 272558006139 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 272558006140 active site 272558006141 Zn binding site [ion binding]; other site 272558006142 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272558006143 Protein of unknown function (DUF2564); Region: DUF2564; pfam10819 272558006144 Transposase domain (DUF772); Region: DUF772; cl12084 272558006145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558006146 Coenzyme A binding pocket [chemical binding]; other site 272558006147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558006148 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272558006149 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 272558006150 motif II; other site 272558006151 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 272558006152 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 272558006153 homodimer interface [polypeptide binding]; other site 272558006154 substrate-cofactor binding pocket; other site 272558006155 catalytic residue [active] 272558006156 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558006157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558006158 Coenzyme A binding pocket [chemical binding]; other site 272558006159 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 272558006160 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 272558006161 active site 272558006162 catalytic tetrad [active] 272558006163 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 272558006164 putative dimer interface [polypeptide binding]; other site 272558006165 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558006166 ligand binding site [chemical binding]; other site 272558006167 Zn binding site [ion binding]; other site 272558006168 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 272558006169 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 272558006170 active site 272558006171 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 272558006172 MatE; Region: MatE; cl10513 272558006173 MatE; Region: MatE; cl10513 272558006174 Helix-turn-helix domains; Region: HTH; cl00088 272558006175 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558006176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006177 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558006178 KduI/IolB family; Region: KduI; cl01508 272558006179 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 272558006180 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 272558006181 NADP binding site [chemical binding]; other site 272558006182 homodimer interface [polypeptide binding]; other site 272558006183 active site 272558006184 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 272558006185 Helix-turn-helix domains; Region: HTH; cl00088 272558006186 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 272558006187 LysE type translocator; Region: LysE; cl00565 272558006188 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 272558006189 Amino acid permease; Region: AA_permease; cl00524 272558006190 Domain of unknown function DUF59; Region: DUF59; cl00941 272558006191 Predicted esterase [General function prediction only]; Region: COG0400 272558006192 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 272558006193 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558006194 Zn binding site [ion binding]; other site 272558006195 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 272558006196 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558006197 Zn binding site [ion binding]; other site 272558006198 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272558006199 Helix-turn-helix domains; Region: HTH; cl00088 272558006200 EamA-like transporter family; Region: EamA; cl01037 272558006201 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272558006202 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 272558006203 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 272558006204 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 272558006205 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 272558006206 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272558006207 Walker A motif; other site 272558006208 ATP binding site [chemical binding]; other site 272558006209 Walker B motif; other site 272558006210 arginine finger; other site 272558006211 UvrB/uvrC motif; Region: UVR; pfam02151 272558006212 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 272558006213 Walker A motif; other site 272558006214 ATP binding site [chemical binding]; other site 272558006215 Walker B motif; other site 272558006216 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272558006217 5'-3' exonuclease; Region: 53EXOc; smart00475 272558006218 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272558006219 active site 272558006220 metal binding site 1 [ion binding]; metal-binding site 272558006221 putative 5' ssDNA interaction site; other site 272558006222 metal binding site 3; metal-binding site 272558006223 metal binding site 2 [ion binding]; metal-binding site 272558006224 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272558006225 putative DNA binding site [nucleotide binding]; other site 272558006226 putative metal binding site [ion binding]; other site 272558006227 N-acetyltransferase; Region: Acetyltransf_2; cl00949 272558006228 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 272558006229 active site 272558006230 catalytic residues [active] 272558006231 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 272558006232 Amino acid permease; Region: AA_permease; cl00524 272558006233 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 272558006234 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 272558006235 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 272558006236 dimanganese center [ion binding]; other site 272558006237 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 272558006238 Spore Coat Protein X and V domain; Region: Coat_X; pfam07552 272558006239 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558006240 Uncharacterized conserved protein [Function unknown]; Region: COG3342 272558006241 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 272558006242 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558006243 aspartate aminotransferase; Provisional; Region: PRK06836 272558006244 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 272558006245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558006246 homodimer interface [polypeptide binding]; other site 272558006247 catalytic residue [active] 272558006248 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272558006249 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272558006250 active site 272558006251 HIGH motif; other site 272558006252 dimer interface [polypeptide binding]; other site 272558006253 KMSKS motif; other site 272558006254 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558006255 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272558006256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558006257 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558006258 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 272558006259 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 272558006260 E3 interaction surface; other site 272558006261 lipoyl attachment site [posttranslational modification]; other site 272558006262 e3 binding domain; Region: E3_binding; pfam02817 272558006263 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558006264 2-oxoglutarate dehydrogenase, E1 component; Region: 2oxo_dh_E1; TIGR00239 272558006265 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 272558006266 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 272558006267 putative DNA binding site [nucleotide binding]; other site 272558006268 putative homodimer interface [polypeptide binding]; other site 272558006269 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK09633 272558006270 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 272558006271 active site 272558006272 DNA binding site [nucleotide binding] 272558006273 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 272558006274 DNA binding site [nucleotide binding] 272558006275 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 272558006276 nucleotide binding site [chemical binding]; other site 272558006277 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 272558006278 classical (c) SDRs; Region: SDR_c; cd05233 272558006279 NAD(P) binding site [chemical binding]; other site 272558006280 active site 272558006281 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 272558006282 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 272558006283 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 272558006284 active site 272558006285 metal binding site [ion binding]; metal-binding site 272558006286 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558006287 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 272558006288 active site 272558006289 phosphorylation site [posttranslational modification] 272558006290 intermolecular recognition site; other site 272558006291 dimerization interface [polypeptide binding]; other site 272558006292 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 272558006293 DNA binding residues [nucleotide binding] 272558006294 dimerization interface [polypeptide binding]; other site 272558006295 GAF domain; Region: GAF_2; pfam13185 272558006296 GAF domain; Region: GAF; cl15785 272558006297 Histidine kinase; Region: HisKA_3; pfam07730 272558006298 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 272558006299 ATP binding site [chemical binding]; other site 272558006300 Mg2+ binding site [ion binding]; other site 272558006301 G-X-G motif; other site 272558006302 BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of...; Region: GH25_BacA-like; cd06418 272558006303 active site 272558006304 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 272558006305 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 272558006306 active site turn [active] 272558006307 phosphorylation site [posttranslational modification] 272558006308 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558006309 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272558006310 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 272558006311 FeS/SAM binding site; other site 272558006312 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558006313 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558006314 DNA binding site [nucleotide binding] 272558006315 domain linker motif; other site 272558006316 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 272558006317 dimerization interface [polypeptide binding]; other site 272558006318 ligand binding site [chemical binding]; other site 272558006319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006320 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558006321 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558006322 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558006323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006324 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558006325 Sodium:solute symporter family; Region: SSF; cl00456 272558006326 putative transporter; Provisional; Region: PRK10484 272558006327 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 272558006328 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 272558006329 catalytic site [active] 272558006330 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558006331 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 272558006332 dimer interface [polypeptide binding]; other site 272558006333 conserved gate region; other site 272558006334 putative PBP binding loops; other site 272558006335 ABC-ATPase subunit interface; other site 272558006336 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272558006337 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 272558006338 dimer interface [polypeptide binding]; other site 272558006339 conserved gate region; other site 272558006340 putative PBP binding loops; other site 272558006341 ABC-ATPase subunit interface; other site 272558006342 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558006343 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 272558006344 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 272558006345 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558006346 DNA binding site [nucleotide binding] 272558006347 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 272558006348 putative dimerization interface [polypeptide binding]; other site 272558006349 putative ligand binding site [chemical binding]; other site 272558006350 alpha-galactosidase; Provisional; Region: PRK15076 272558006351 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 272558006352 NAD binding site [chemical binding]; other site 272558006353 sugar binding site [chemical binding]; other site 272558006354 divalent metal binding site [ion binding]; other site 272558006355 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558006356 dimer interface [polypeptide binding]; other site 272558006357 Cupin domain; Region: Cupin_2; cl09118 272558006358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558006359 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558006360 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558006361 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 272558006362 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 272558006363 DXD motif; other site 272558006364 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 272558006365 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 272558006366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272558006367 metal binding site [ion binding]; metal-binding site 272558006368 active site 272558006369 I-site; other site 272558006370 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 272558006371 active site 272558006372 phosphorylation site [posttranslational modification] 272558006373 intermolecular recognition site; other site 272558006374 dimerization interface [polypeptide binding]; other site 272558006375 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 272558006376 Response regulator receiver domain; Region: Response_reg; pfam00072 272558006377 active site 272558006378 phosphorylation site [posttranslational modification] 272558006379 intermolecular recognition site; other site 272558006380 dimerization interface [polypeptide binding]; other site 272558006381 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272558006382 metal binding site [ion binding]; metal-binding site 272558006383 active site 272558006384 I-site; other site 272558006385 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 272558006386 dimer interface [polypeptide binding]; other site 272558006387 FMN binding site [chemical binding]; other site 272558006388 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 272558006389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558006390 tetrameric interface [polypeptide binding]; other site 272558006391 activator binding site; other site 272558006392 NADP binding site [chemical binding]; other site 272558006393 substrate binding site [chemical binding]; other site 272558006394 catalytic residues [active] 272558006395 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272558006396 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272558006397 active site 272558006398 YusW-like protein; Region: YusW; pfam14039 272558006399 Erythromycin esterase; Region: Erythro_esteras; pfam05139 272558006400 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 272558006401 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 272558006402 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 272558006403 FeS/SAM binding site; other site 272558006404 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 272558006405 active site 272558006406 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 272558006407 Ligand Binding Site [chemical binding]; other site 272558006408 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 272558006409 Protein of unknown function (DUF541); Region: SIMPL; cl01077 272558006410 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 272558006411 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272558006412 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 272558006413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 272558006414 Nucleoside recognition; Region: Gate; cl00486 272558006415 Protein of unknown function (DUF2642); Region: DUF2642; pfam10842 272558006416 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272558006417 DoxX; Region: DoxX; cl00976 272558006418 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 272558006419 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 272558006420 FeS/SAM binding site; other site 272558006421 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 272558006422 YokU-like protein; Region: YokU; cl15819 272558006423 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 272558006424 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 272558006425 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 272558006426 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 272558006427 hypothetical protein; Provisional; Region: PRK06917 272558006428 inhibitor-cofactor binding pocket; inhibition site 272558006429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558006430 catalytic residue [active] 272558006431 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 272558006432 Response regulator receiver domain; Region: Response_reg; pfam00072 272558006433 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 272558006434 active site 272558006435 phosphorylation site [posttranslational modification] 272558006436 intermolecular recognition site; other site 272558006437 dimerization interface [polypeptide binding]; other site 272558006438 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 272558006439 dimerization interface [polypeptide binding]; other site 272558006440 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 272558006441 dimer interface [polypeptide binding]; other site 272558006442 phosphorylation site [posttranslational modification] 272558006443 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 272558006444 ATP binding site [chemical binding]; other site 272558006445 Mg2+ binding site [ion binding]; other site 272558006446 G-X-G motif; other site 272558006447 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558006448 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 272558006449 active site 272558006450 phosphorylation site [posttranslational modification] 272558006451 intermolecular recognition site; other site 272558006452 dimerization interface [polypeptide binding]; other site 272558006453 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 272558006454 DNA binding site [nucleotide binding] 272558006455 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558006456 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558006457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006458 Walker A/P-loop; other site 272558006459 ATP binding site [chemical binding]; other site 272558006460 Q-loop/lid; other site 272558006461 ABC transporter signature motif; other site 272558006462 Walker B; other site 272558006463 D-loop; other site 272558006464 H-loop/switch region; other site 272558006465 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 272558006466 active site 272558006467 dimer interface [polypeptide binding]; other site 272558006468 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 272558006469 putative dimer interface [polypeptide binding]; other site 272558006470 YppG-like protein; Region: YppG; pfam14179 272558006471 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272558006472 Cache domain; Region: Cache_1; pfam02743 272558006473 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 272558006474 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 272558006475 dimerization interface [polypeptide binding]; other site 272558006476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558006477 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558006478 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 272558006479 MFS_1 like family; Region: MFS_1_like; pfam12832 272558006480 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 272558006481 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 272558006482 Flavin Reductases; Region: FlaRed; cl00801 272558006483 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 272558006484 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558006485 nucleophilic elbow; other site 272558006486 catalytic triad; other site 272558006487 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 272558006488 Homoserine O-succinyltransferase; Region: HTS; pfam04204 272558006489 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 272558006490 proposed active site lysine [active] 272558006491 conserved cys residue [active] 272558006492 hypothetical protein; Validated; Region: PRK07708 272558006493 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 272558006494 RNA/DNA hybrid binding site [nucleotide binding]; other site 272558006495 active site 272558006496 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272558006497 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 272558006498 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 272558006499 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 272558006500 homodimer interface [polypeptide binding]; other site 272558006501 NAD binding pocket [chemical binding]; other site 272558006502 ATP binding pocket [chemical binding]; other site 272558006503 Mg binding site [ion binding]; other site 272558006504 active-site loop [active] 272558006505 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830; cl07951 272558006506 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 272558006507 active site 272558006508 stage V sporulation protein K; Region: spore_V_K; TIGR02881 272558006509 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 272558006510 Walker A motif; other site 272558006511 ATP binding site [chemical binding]; other site 272558006512 Walker B motif; other site 272558006513 arginine finger; other site 272558006514 stage V sporulation protein K; Region: spore_V_K; TIGR02881 272558006515 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 272558006516 Walker A motif; other site 272558006517 ATP binding site [chemical binding]; other site 272558006518 Walker B motif; other site 272558006519 arginine finger; other site 272558006520 Copper resistance protein D; Region: CopD; cl00563 272558006521 Bacterial Ig-like domain; Region: Big_5; cl01012 272558006522 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 272558006523 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 272558006524 putative peptidoglycan binding site; other site 272558006525 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 272558006526 putative peptidoglycan binding site; other site 272558006527 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 272558006528 active site 272558006529 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272558006530 VanZ like family; Region: VanZ; cl01971 272558006531 Small acid-soluble spore protein N family; Region: SspN; cl11659 272558006532 Protein of unknown function (DUF3901); Region: DUF3901; pfam13040 272558006533 Protein of unknown function (DUF421); Region: DUF421; cl00990 272558006534 aconitate hydratase; Validated; Region: PRK09277 272558006535 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 272558006536 substrate binding site [chemical binding]; other site 272558006537 ligand binding site [chemical binding]; other site 272558006538 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 272558006539 substrate binding site [chemical binding]; other site 272558006540 Small acid-soluble spore protein O family; Region: SspO; cl07943 272558006541 Small acid-soluble spore protein P family; Region: SspP; cl12105 272558006542 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 272558006543 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 272558006544 active site 272558006545 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272558006546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006547 NAD(P) binding site [chemical binding]; other site 272558006548 active site 272558006549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558006550 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 272558006551 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558006552 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 272558006553 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558006554 allantoinase; Provisional; Region: PRK06189 272558006555 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 272558006556 active site 272558006557 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272558006558 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 272558006559 DNA interaction; other site 272558006560 Metal-binding active site; metal-binding site 272558006561 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 272558006562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558006563 putative substrate translocation pore; other site 272558006564 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 272558006565 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558006566 tetrameric interface [polypeptide binding]; other site 272558006567 NAD binding site [chemical binding]; other site 272558006568 catalytic residues [active] 272558006569 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558006570 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558006571 DNA binding site [nucleotide binding] 272558006572 domain linker motif; other site 272558006573 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 272558006574 dimerization interface [polypeptide binding]; other site 272558006575 ligand binding site [chemical binding]; other site 272558006576 hypothetical protein; Provisional; Region: PRK08185 272558006577 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 272558006578 intersubunit interface [polypeptide binding]; other site 272558006579 active site 272558006580 zinc binding site [ion binding]; other site 272558006581 Na+ binding site [ion binding]; other site 272558006582 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272558006583 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 272558006584 Metal-binding active site; metal-binding site 272558006585 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558006586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006587 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558006588 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 272558006589 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 272558006590 Metal-binding active site; metal-binding site 272558006591 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 272558006592 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272558006593 PYR/PP interface [polypeptide binding]; other site 272558006594 dimer interface [polypeptide binding]; other site 272558006595 TPP binding site [chemical binding]; other site 272558006596 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272558006597 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 272558006598 TPP-binding site; other site 272558006599 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272558006600 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 272558006601 substrate binding site [chemical binding]; other site 272558006602 ATP binding site [chemical binding]; other site 272558006603 KduI/IolB family; Region: KduI; cl01508 272558006604 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 272558006605 TM-ABC transporter signature motif; other site 272558006606 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272558006607 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 272558006608 Walker A/P-loop; other site 272558006609 ATP binding site [chemical binding]; other site 272558006610 Q-loop/lid; other site 272558006611 ABC transporter signature motif; other site 272558006612 Walker B; other site 272558006613 D-loop; other site 272558006614 H-loop/switch region; other site 272558006615 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 272558006616 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 272558006617 putative ligand binding site [chemical binding]; other site 272558006618 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; cl00470 272558006619 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 272558006620 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 272558006621 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 272558006622 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 272558006623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006624 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 272558006625 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 272558006626 S-adenosylmethionine binding site [chemical binding]; other site 272558006627 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 272558006628 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 272558006629 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 272558006630 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 272558006631 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558006632 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 272558006633 Walker A/P-loop; other site 272558006634 ATP binding site [chemical binding]; other site 272558006635 Q-loop/lid; other site 272558006636 ABC transporter signature motif; other site 272558006637 Walker B; other site 272558006638 D-loop; other site 272558006639 H-loop/switch region; other site 272558006640 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558006641 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 272558006642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006643 Walker A/P-loop; other site 272558006644 ATP binding site [chemical binding]; other site 272558006645 Q-loop/lid; other site 272558006646 ABC transporter signature motif; other site 272558006647 Walker B; other site 272558006648 D-loop; other site 272558006649 H-loop/switch region; other site 272558006650 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 272558006651 A pre-toxin domain with the TG motif; Region: PT-TG; pfam14449 272558006652 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 272558006653 Helix-turn-helix domains; Region: HTH; cl00088 272558006654 putative transposase OrfB; Reviewed; Region: PHA02517 272558006655 HTH-like domain; Region: HTH_21; pfam13276 272558006656 Integrase core domain; Region: rve; cl01316 272558006657 Integrase core domain; Region: rve_3; cl15866 272558006658 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558006659 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 272558006660 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 272558006661 Protein of unknown function (DUF2522); Region: DUF2522; pfam10747 272558006662 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 272558006663 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 272558006664 TPP-binding site [chemical binding]; other site 272558006665 dimer interface [polypeptide binding]; other site 272558006666 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 272558006667 PYR/PP interface [polypeptide binding]; other site 272558006668 dimer interface [polypeptide binding]; other site 272558006669 TPP binding site [chemical binding]; other site 272558006670 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558006671 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 272558006672 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 272558006673 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 272558006674 catalytic residues [active] 272558006675 catalytic nucleophile [active] 272558006676 Helix-turn-helix domains; Region: HTH; cl00088 272558006677 LexA repressor; Validated; Region: PRK00215 272558006678 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 272558006679 Catalytic site [active] 272558006680 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 272558006681 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 272558006682 glutamine synthetase, type I; Region: GlnA; TIGR00653 272558006683 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272558006684 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272558006685 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 272558006686 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 272558006687 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558006688 catalytic residue [active] 272558006689 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272558006690 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 272558006691 G1 box; other site 272558006692 GTP/Mg2+ binding site [chemical binding]; other site 272558006693 Switch I region; other site 272558006694 G2 box; other site 272558006695 G3 box; other site 272558006696 Switch II region; other site 272558006697 G4 box; other site 272558006698 G5 box; other site 272558006699 stage V sporulation protein K; Region: spore_V_K; TIGR02881 272558006700 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 272558006701 Walker A motif; other site 272558006702 ATP binding site [chemical binding]; other site 272558006703 Walker B motif; other site 272558006704 arginine finger; other site 272558006705 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 272558006706 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 272558006707 Int/Topo IB signature motif; other site 272558006708 active site 272558006709 DNA binding site [nucleotide binding] 272558006710 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 272558006711 Sm1 motif; other site 272558006712 intra - hexamer interaction site; other site 272558006713 inter - hexamer interaction site [polypeptide binding]; other site 272558006714 nucleotide binding pocket [chemical binding]; other site 272558006715 Sm2 motif; other site 272558006716 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 272558006717 IPP transferase; Region: IPPT; cl00403 272558006718 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 272558006719 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 272558006720 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 272558006721 ATP binding site [chemical binding]; other site 272558006722 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 272558006723 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272558006724 MutS domain I; Region: MutS_I; pfam01624 272558006725 MutS domain II; Region: MutS_II; pfam05188 272558006726 MutS family domain IV; Region: MutS_IV; pfam05190 272558006727 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 272558006728 Walker A/P-loop; other site 272558006729 ATP binding site [chemical binding]; other site 272558006730 Q-loop/lid; other site 272558006731 ABC transporter signature motif; other site 272558006732 Walker B; other site 272558006733 D-loop; other site 272558006734 H-loop/switch region; other site 272558006735 Outer spore coat protein E (CotE); Region: CotE; pfam10628 272558006736 Protein of unknown function (DUF964); Region: DUF964; cl01483 272558006737 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 272558006738 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 272558006739 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 272558006740 FeS/SAM binding site; other site 272558006741 TRAM domain; Region: TRAM; cl01282 272558006742 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 272558006743 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 272558006744 TPP-binding site [chemical binding]; other site 272558006745 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 272558006746 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 272558006747 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 272558006748 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 272558006749 dimer interface [polypeptide binding]; other site 272558006750 PYR/PP interface [polypeptide binding]; other site 272558006751 TPP binding site [chemical binding]; other site 272558006752 substrate binding site [chemical binding]; other site 272558006753 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 272558006754 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 272558006755 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272558006756 putative active site [active] 272558006757 metal binding site [ion binding]; metal-binding site 272558006758 homodimer binding site [polypeptide binding]; other site 272558006759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558006760 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558006761 phosphodiesterase; Provisional; Region: PRK12704 272558006762 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558006763 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272558006764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006765 ABC transporter signature motif; other site 272558006766 Walker B; other site 272558006767 D-loop; other site 272558006768 H-loop/switch region; other site 272558006769 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 272558006770 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 272558006771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006772 Walker A/P-loop; other site 272558006773 ATP binding site [chemical binding]; other site 272558006774 Q-loop/lid; other site 272558006775 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 272558006776 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 272558006777 active site 272558006778 metal binding site [ion binding]; metal-binding site 272558006779 DNA binding site [nucleotide binding] 272558006780 recombinase A; Provisional; Region: recA; PRK09354 272558006781 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 272558006782 hexamer interface [polypeptide binding]; other site 272558006783 Walker A motif; other site 272558006784 ATP binding site [chemical binding]; other site 272558006785 Walker B motif; other site 272558006786 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 272558006787 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 272558006788 ATP binding site [chemical binding]; other site 272558006789 Mg++ binding site [ion binding]; other site 272558006790 motif III; other site 272558006791 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 272558006792 nucleotide binding region [chemical binding]; other site 272558006793 ATP-binding site [chemical binding]; other site 272558006794 DbpA RNA binding domain; Region: DbpA; pfam03880 272558006795 competence damage-inducible protein A; Provisional; Region: PRK00549 272558006796 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 272558006797 putative MPT binding site; other site 272558006798 Competence-damaged protein; Region: CinA; cl00666 272558006799 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272558006800 Protein of unknown function (DUF520); Region: DUF520; cl00723 272558006801 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 272558006802 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558006803 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 272558006804 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 272558006805 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 272558006806 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 272558006807 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558006808 classical (c) SDRs; Region: SDR_c; cd05233 272558006809 NAD(P) binding site [chemical binding]; other site 272558006810 active site 272558006811 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272558006812 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272558006813 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272558006814 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272558006815 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272558006816 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272558006817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558006818 DNA-binding site [nucleotide binding]; DNA binding site 272558006819 UTRA domain; Region: UTRA; cl01230 272558006820 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272558006821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006822 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272558006823 YlzJ-like protein; Region: YlzJ; pfam14035 272558006824 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 272558006825 active site 272558006826 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272558006827 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558006828 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272558006829 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 272558006830 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272558006831 dimer interface [polypeptide binding]; other site 272558006832 active site 272558006833 catalytic residue [active] 272558006834 aspartate kinase I; Reviewed; Region: PRK08210 272558006835 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 272558006836 nucleotide binding site [chemical binding]; other site 272558006837 substrate binding site [chemical binding]; other site 272558006838 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 272558006839 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 272558006840 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 272558006841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006842 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272558006843 Flavoprotein; Region: Flavoprotein; cl08021 272558006844 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 272558006845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558006846 NAD(P) binding pocket [chemical binding]; other site 272558006847 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 272558006848 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 272558006849 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272558006850 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272558006851 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 272558006852 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 272558006853 NodB motif; other site 272558006854 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272558006855 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272558006856 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272558006857 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272558006858 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272558006859 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272558006860 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 272558006861 putative nucleic acid binding region [nucleotide binding]; other site 272558006862 G-X-X-G motif; other site 272558006863 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 272558006864 RNA binding site [nucleotide binding]; other site 272558006865 domain interface; other site 272558006866 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 272558006867 16S/18S rRNA binding site [nucleotide binding]; other site 272558006868 S13e-L30e interaction site [polypeptide binding]; other site 272558006869 25S rRNA binding site [nucleotide binding]; other site 272558006870 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272558006871 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272558006872 active site 272558006873 Riboflavin kinase; Region: Flavokinase; cl03312 272558006874 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 272558006875 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 272558006876 RNA binding site [nucleotide binding]; other site 272558006877 active site 272558006878 Ribosome-binding factor A; Region: RBFA; cl00542 272558006879 Protein of unknown function (DUF503); Region: DUF503; cl00669 272558006880 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272558006881 translation initiation factor IF-2; Region: IF-2; TIGR00487 272558006882 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272558006883 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 272558006884 G1 box; other site 272558006885 putative GEF interaction site [polypeptide binding]; other site 272558006886 GTP/Mg2+ binding site [chemical binding]; other site 272558006887 Switch I region; other site 272558006888 G2 box; other site 272558006889 G3 box; other site 272558006890 Switch II region; other site 272558006891 G4 box; other site 272558006892 G5 box; other site 272558006893 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 272558006894 Translation-initiation factor 2; Region: IF-2; pfam11987 272558006895 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 272558006896 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 272558006897 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 272558006898 putative RNA binding cleft [nucleotide binding]; other site 272558006899 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 272558006900 NusA N-terminal domain; Region: NusA_N; pfam08529 272558006901 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 272558006902 RNA binding site [nucleotide binding]; other site 272558006903 homodimer interface [polypeptide binding]; other site 272558006904 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 272558006905 G-X-X-G motif; other site 272558006906 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 272558006907 G-X-X-G motif; other site 272558006908 ribosome maturation protein RimP; Reviewed; Region: PRK00092 272558006909 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 272558006910 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 272558006911 Sm1 motif; other site 272558006912 predicted subunit interaction site [polypeptide binding]; other site 272558006913 RNA binding pocket [nucleotide binding]; other site 272558006914 Sm2 motif; other site 272558006915 DNA polymerase III PolC; Validated; Region: polC; PRK00448 272558006916 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 272558006917 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 272558006918 generic binding surface II; other site 272558006919 generic binding surface I; other site 272558006920 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272558006921 active site 272558006922 substrate binding site [chemical binding]; other site 272558006923 catalytic site [active] 272558006924 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272558006925 prolyl-tRNA synthetase; Provisional; Region: PRK09194 272558006926 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 272558006927 dimer interface [polypeptide binding]; other site 272558006928 motif 1; other site 272558006929 active site 272558006930 motif 2; other site 272558006931 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 272558006932 putative deacylase active site [active] 272558006933 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 272558006934 active site 272558006935 motif 3; other site 272558006936 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 272558006937 anticodon binding site; other site 272558006938 RIP metalloprotease RseP; Region: TIGR00054 272558006939 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 272558006940 active site 272558006941 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 272558006942 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 272558006943 protein binding site [polypeptide binding]; other site 272558006944 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 272558006945 putative substrate binding region [chemical binding]; other site 272558006946 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272558006947 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272558006948 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272558006949 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272558006950 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 272558006951 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; cd00475 272558006952 catalytic residue [active] 272558006953 putative FPP diphosphate binding site; other site 272558006954 putative FPP binding hydrophobic cleft; other site 272558006955 dimer interface [polypeptide binding]; other site 272558006956 putative IPP diphosphate binding site; other site 272558006957 ribosome recycling factor; Reviewed; Region: frr; PRK00083 272558006958 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 272558006959 hinge region; other site 272558006960 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 272558006961 putative nucleotide binding site [chemical binding]; other site 272558006962 uridine monophosphate binding site [chemical binding]; other site 272558006963 homohexameric interface [polypeptide binding]; other site 272558006964 elongation factor Ts; Provisional; Region: tsf; PRK09377 272558006965 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 272558006966 Elongation factor TS; Region: EF_TS; pfam00889 272558006967 Elongation factor TS; Region: EF_TS; pfam00889 272558006968 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 272558006969 rRNA interaction site [nucleotide binding]; other site 272558006970 S8 interaction site; other site 272558006971 putative laminin-1 binding site; other site 272558006972 Uncharacterized conserved protein [Function unknown]; Region: COG1315 272558006973 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272558006974 RNA polymerase sigma factor SigD; Validated; Region: PRK07670 272558006975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558006976 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558006977 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 272558006978 DNA binding residues [nucleotide binding] 272558006979 CheD chemotactic sensory transduction; Region: CheD; cl00810 272558006980 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 272558006981 CheC-like family; Region: CheC; pfam04509 272558006982 CheC-like family; Region: CheC; pfam04509 272558006983 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 272558006984 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 272558006985 active site 272558006986 phosphorylation site [posttranslational modification] 272558006987 intermolecular recognition site; other site 272558006988 dimerization interface [polypeptide binding]; other site 272558006989 CheB methylesterase; Region: CheB_methylest; pfam01339 272558006990 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 272558006991 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 272558006992 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 272558006993 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558006994 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272558006995 FHIPEP family; Region: FHIPEP; pfam00771 272558006996 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 272558006997 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 272558006998 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272558006999 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272558007000 FliP family; Region: FliP; cl00593 272558007001 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 272558007002 Response regulator receiver domain; Region: Response_reg; pfam00072 272558007003 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 272558007004 active site 272558007005 phosphorylation site [posttranslational modification] 272558007006 intermolecular recognition site; other site 272558007007 dimerization interface [polypeptide binding]; other site 272558007008 flagellar motor switch protein; Validated; Region: PRK08119 272558007009 Chemotaxis phosphatase CheX; Region: CheX; cl15816 272558007010 Chemotaxis phosphatase CheX; Region: CheX; cl15816 272558007011 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272558007012 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 272558007013 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272558007014 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 272558007015 Flagellar protein (FlbD); Region: FlbD; cl00683 272558007016 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 272558007017 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272558007018 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272558007019 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 272558007020 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 272558007021 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 272558007022 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 272558007023 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 272558007024 MgtE intracellular N domain; Region: MgtE_N; cl15244 272558007025 Flagellar FliJ protein; Region: FliJ; cl09161 272558007026 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 272558007027 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07721 272558007028 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272558007029 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 272558007030 Walker A motif/ATP binding site; other site 272558007031 Walker B motif; other site 272558007032 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 272558007033 Flagellar assembly protein FliH; Region: FliH; pfam02108 272558007034 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 272558007035 FliG C-terminal domain; Region: FliG_C; pfam01706 272558007036 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 272558007037 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272558007038 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 272558007039 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 272558007040 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 272558007041 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272558007042 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 272558007043 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 272558007044 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272558007045 transcriptional repressor CodY; Validated; Region: PRK04158 272558007046 CodY GAF-like domain; Region: CodY; pfam06018 272558007047 Helix-turn-helix domains; Region: HTH; cl00088 272558007048 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 272558007049 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 272558007050 Walker A motif; other site 272558007051 ATP binding site [chemical binding]; other site 272558007052 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558007053 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272558007054 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 272558007055 active site 272558007056 HslU subunit interaction site [polypeptide binding]; other site 272558007057 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 272558007058 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 272558007059 Int/Topo IB signature motif; other site 272558007060 active site 272558007061 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 272558007062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007063 DNA topoisomerase I; Validated; Region: PRK05582 272558007064 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 272558007065 active site 272558007066 interdomain interaction site; other site 272558007067 putative metal-binding site [ion binding]; other site 272558007068 nucleotide binding site [chemical binding]; other site 272558007069 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 272558007070 domain I; other site 272558007071 DNA binding groove [nucleotide binding] 272558007072 phosphate binding site [ion binding]; other site 272558007073 domain II; other site 272558007074 domain III; other site 272558007075 nucleotide binding site [chemical binding]; other site 272558007076 catalytic site [active] 272558007077 domain IV; other site 272558007078 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272558007079 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272558007080 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272558007081 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 272558007082 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272558007083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007084 CoA-ligase; Region: Ligase_CoA; cl02894 272558007085 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 272558007086 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558007087 CoA-ligase; Region: Ligase_CoA; pfam00549 272558007088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558007089 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558007090 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 272558007091 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272558007092 RNA/DNA hybrid binding site [nucleotide binding]; other site 272558007093 active site 272558007094 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 272558007095 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 272558007096 GTP/Mg2+ binding site [chemical binding]; other site 272558007097 G4 box; other site 272558007098 G5 box; other site 272558007099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558007100 G1 box; other site 272558007101 Switch I region; other site 272558007102 G2 box; other site 272558007103 G3 box; other site 272558007104 Switch II region; other site 272558007105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558007106 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558007107 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 272558007108 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 272558007109 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 272558007110 RimM N-terminal domain; Region: RimM; pfam01782 272558007111 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 272558007112 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 272558007113 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 272558007114 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 272558007115 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 272558007116 signal recognition particle protein; Provisional; Region: PRK10867 272558007117 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272558007118 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 272558007119 P loop; other site 272558007120 GTP binding site [chemical binding]; other site 272558007121 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272558007122 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 272558007123 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 272558007124 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272558007125 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272558007126 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 272558007127 P loop; other site 272558007128 GTP binding site [chemical binding]; other site 272558007129 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272558007130 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 272558007131 Walker A/P-loop; other site 272558007132 ATP binding site [chemical binding]; other site 272558007133 Q-loop/lid; other site 272558007134 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 272558007135 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 272558007136 ABC transporter signature motif; other site 272558007137 Walker B; other site 272558007138 D-loop; other site 272558007139 H-loop/switch region; other site 272558007140 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 272558007141 ribonuclease III; Reviewed; Region: rnc; PRK00102 272558007142 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 272558007143 dimerization interface [polypeptide binding]; other site 272558007144 active site 272558007145 metal binding site [ion binding]; metal-binding site 272558007146 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 272558007147 dsRNA binding site [nucleotide binding]; other site 272558007148 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272558007149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 272558007150 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272558007151 NAD(P) binding site [chemical binding]; other site 272558007152 homotetramer interface [polypeptide binding]; other site 272558007153 homodimer interface [polypeptide binding]; other site 272558007154 active site 272558007155 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272558007156 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272558007157 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272558007158 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 272558007159 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 272558007160 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 272558007161 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 272558007162 generic binding surface II; other site 272558007163 ssDNA binding site; other site 272558007164 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 272558007165 ATP binding site [chemical binding]; other site 272558007166 putative Mg++ binding site [ion binding]; other site 272558007167 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 272558007168 nucleotide binding region [chemical binding]; other site 272558007169 ATP-binding site [chemical binding]; other site 272558007170 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 272558007171 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 272558007172 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 272558007173 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 272558007174 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 272558007175 putative L-serine binding site [chemical binding]; other site 272558007176 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 272558007177 DAK2 domain; Region: Dak2; cl03685 272558007178 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272558007179 Asp23 family; Region: Asp23; cl00574 272558007180 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 272558007181 Stage V sporulation protein family; Region: SpoV; cl15455 272558007182 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 272558007183 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 272558007184 substrate binding site [chemical binding]; other site 272558007185 hexamer interface [polypeptide binding]; other site 272558007186 metal binding site [ion binding]; metal-binding site 272558007187 GTPase RsgA; Reviewed; Region: PRK00098 272558007188 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 272558007189 GTPase/OB domain interface [polypeptide binding]; other site 272558007190 GTPase/Zn-binding domain interface [polypeptide binding]; other site 272558007191 GTP/Mg2+ binding site [chemical binding]; other site 272558007192 G4 box; other site 272558007193 G5 box; other site 272558007194 G1 box; other site 272558007195 Switch I region; other site 272558007196 G2 box; other site 272558007197 G3 box; other site 272558007198 Switch II region; other site 272558007199 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272558007200 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272558007201 active site 272558007202 ATP binding site [chemical binding]; other site 272558007203 substrate binding site [chemical binding]; other site 272558007204 activation loop (A-loop); other site 272558007205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 272558007206 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 272558007207 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 272558007208 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 272558007209 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 272558007210 Protein phosphatase 2C; Region: PP2C; pfam00481 272558007211 active site 272558007212 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 272558007213 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 272558007214 FeS/SAM binding site; other site 272558007215 16S rRNA methyltransferase B; Provisional; Region: PRK14902 272558007216 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 272558007217 putative RNA binding site [nucleotide binding]; other site 272558007218 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 272558007219 S-adenosylmethionine binding site [chemical binding]; other site 272558007220 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272558007221 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272558007222 putative active site [active] 272558007223 substrate binding site [chemical binding]; other site 272558007224 putative cosubstrate binding site; other site 272558007225 catalytic site [active] 272558007226 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272558007227 substrate binding site [chemical binding]; other site 272558007228 primosome assembly protein PriA; Validated; Region: PRK05580 272558007229 primosome assembly protein PriA; Validated; Region: PRK05580 272558007230 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 272558007231 ATP binding site [chemical binding]; other site 272558007232 putative Mg++ binding site [ion binding]; other site 272558007233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558007234 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 272558007235 Flavoprotein; Region: Flavoprotein; cl08021 272558007236 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 272558007237 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 272558007238 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 272558007239 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 272558007240 catalytic site [active] 272558007241 G-X2-G-X-G-K; other site 272558007242 Domain of unknown function (DUF370); Region: DUF370; cl00898 272558007243 hypothetical protein; Provisional; Region: PRK11820 272558007244 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 272558007245 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 272558007246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 272558007247 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 272558007248 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272558007249 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 272558007250 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 272558007251 motif II; other site 272558007252 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 272558007253 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 272558007254 Domain of unknown function (DUF814); Region: DUF814; pfam05670 272558007255 Integrase core domain; Region: rve; cl01316 272558007256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 272558007257 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 272558007258 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 272558007259 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558007260 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272558007261 Integrase core domain; Region: rve; cl01316 272558007262 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 272558007263 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 272558007264 FeS/SAM binding site; other site 272558007265 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 272558007266 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 272558007267 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 272558007268 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 272558007269 putative substrate translocation pore; other site 272558007270 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 272558007271 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 272558007272 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 272558007273 putative molybdopterin cofactor binding site [chemical binding]; other site 272558007274 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 272558007275 putative molybdopterin cofactor binding site; other site 272558007276 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 272558007277 S-adenosylmethionine binding site [chemical binding]; other site 272558007278 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558007279 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 272558007280 active site 272558007281 dimer interface [polypeptide binding]; other site 272558007282 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 272558007283 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 272558007284 heterodimer interface [polypeptide binding]; other site 272558007285 active site 272558007286 FMN binding site [chemical binding]; other site 272558007287 homodimer interface [polypeptide binding]; other site 272558007288 substrate binding site [chemical binding]; other site 272558007289 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 272558007290 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 272558007291 FAD binding pocket [chemical binding]; other site 272558007292 FAD binding motif [chemical binding]; other site 272558007293 phosphate binding motif [ion binding]; other site 272558007294 beta-alpha-beta structure motif; other site 272558007295 NAD binding pocket [chemical binding]; other site 272558007296 Iron coordination center [ion binding]; other site 272558007297 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 272558007298 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558007299 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558007300 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272558007301 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558007302 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558007303 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 272558007304 IMP binding site; other site 272558007305 dimer interface [polypeptide binding]; other site 272558007306 interdomain contacts; other site 272558007307 partial ornithine binding site; other site 272558007308 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 272558007309 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 272558007310 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272558007311 catalytic site [active] 272558007312 subunit interface [polypeptide binding]; other site 272558007313 dihydroorotase; Validated; Region: pyrC; PRK09357 272558007314 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 272558007315 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 272558007316 active site 272558007317 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 272558007318 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272558007319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007320 Permease family; Region: Xan_ur_permease; cl00967 272558007321 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272558007322 active site 272558007323 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 272558007324 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 272558007325 RNA binding surface [nucleotide binding]; other site 272558007326 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 272558007327 active site 272558007328 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272558007329 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272558007330 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 272558007331 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272558007332 active site 272558007333 HIGH motif; other site 272558007334 nucleotide binding site [chemical binding]; other site 272558007335 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272558007336 active site 272558007337 KMSKS motif; other site 272558007338 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 272558007339 tRNA binding surface [nucleotide binding]; other site 272558007340 anticodon binding site; other site 272558007341 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272558007342 DivIVA protein; Region: DivIVA; pfam05103 272558007343 DivIVA domain; Region: DivI1A_domain; TIGR03544 272558007344 Plant ATP synthase F0; Region: YMF19; cl07975 272558007345 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 272558007346 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 272558007347 RNA binding surface [nucleotide binding]; other site 272558007348 YGGT family; Region: YGGT; cl00508 272558007349 Protein of unknown function (DUF552); Region: DUF552; cl00775 272558007350 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 272558007351 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272558007352 catalytic residue [active] 272558007353 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272558007354 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272558007355 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 272558007356 Integral membrane protein TerC family; Region: TerC; cl10468 272558007357 sporulation sigma factor SigG; Reviewed; Region: PRK08215 272558007358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558007359 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272558007360 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 272558007361 DNA binding residues [nucleotide binding] 272558007362 sporulation sigma factor SigE; Reviewed; Region: PRK08301 272558007363 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558007364 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 272558007365 DNA binding residues [nucleotide binding] 272558007366 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 272558007367 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 272558007368 cell division protein FtsZ; Validated; Region: PRK09330 272558007369 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 272558007370 nucleotide binding site [chemical binding]; other site 272558007371 SulA interaction site; other site 272558007372 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 272558007373 Cell division protein FtsA; Region: FtsA; cl11496 272558007374 Cell division protein FtsA; Region: FtsA; cl11496 272558007375 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 272558007376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 272558007377 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272558007378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 272558007379 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 272558007380 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 272558007381 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 272558007382 Cell division protein FtsQ; Region: FtsQ; pfam03799 272558007383 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272558007384 FAD binding domain; Region: FAD_binding_4; pfam01565 272558007385 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272558007386 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 272558007387 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 272558007388 active site 272558007389 homodimer interface [polypeptide binding]; other site 272558007390 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272558007391 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 272558007392 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 272558007393 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272558007394 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 272558007395 Mg++ binding site [ion binding]; other site 272558007396 putative catalytic motif [active] 272558007397 putative substrate binding site [chemical binding]; other site 272558007398 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272558007399 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 272558007400 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 272558007401 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272558007402 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272558007403 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272558007404 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 272558007405 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272558007406 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272558007407 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272558007408 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 272558007409 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558007410 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558007411 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 272558007412 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272558007413 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558007414 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558007415 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 272558007416 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 272558007417 Septum formation initiator; Region: DivIC; cl11433 272558007418 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 272558007419 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 272558007420 mraZ protein; Region: TIGR00242 272558007421 MraZ protein; Region: MraZ; pfam02381 272558007422 MraZ protein; Region: MraZ; pfam02381 272558007423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 272558007424 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 272558007425 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 272558007426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007427 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 272558007428 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 272558007429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558007430 Coenzyme A binding pocket [chemical binding]; other site 272558007431 transcription factor, RsfA family; Region: DNA_bind_RsfA; TIGR02894 272558007432 putative spore coat protein regulator protein YlbO; Provisional; Region: PRK13923 272558007433 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 272558007434 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 272558007435 substrate binding site [chemical binding]; other site 272558007436 oxyanion hole (OAH) forming residues; other site 272558007437 trimer interface [polypeptide binding]; other site 272558007438 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 272558007439 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 272558007440 Protein of unknown function (DUF795); Region: DUF795; pfam05636 272558007441 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272558007442 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 272558007443 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 272558007444 protein binding site [polypeptide binding]; other site 272558007445 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272558007446 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 272558007447 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 272558007448 active site 272558007449 nucleophile elbow; other site 272558007450 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 272558007451 Nucleoside recognition; Region: Gate; cl00486 272558007452 Nucleoside recognition; Region: Gate; cl00486 272558007453 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 272558007454 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 272558007455 active site 272558007456 (T/H)XGH motif; other site 272558007457 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 272558007458 drug efflux system protein MdtG; Provisional; Region: PRK09874 272558007459 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 272558007460 putative substrate translocation pore; other site 272558007461 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272558007462 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 272558007463 Protein of unknown function (DUF964); Region: DUF964; cl01483 272558007464 UV-endonuclease UvdE; Region: UvdE; cl10036 272558007465 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558007466 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 272558007467 YlbE-like protein; Region: YlbE; pfam14003 272558007468 Putative coat protein; Region: YlbD_coat; pfam14071 272558007469 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 272558007470 CoenzymeA binding site [chemical binding]; other site 272558007471 subunit interaction site [polypeptide binding]; other site 272558007472 PHB binding site; other site 272558007473 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 272558007474 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 272558007475 homodimer interface [polypeptide binding]; other site 272558007476 substrate-cofactor binding pocket; other site 272558007477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558007478 catalytic residue [active] 272558007479 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 272558007480 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 272558007481 FOG: CBS domain [General function prediction only]; Region: COG0517 272558007482 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 272558007483 YugN-like family; Region: YugN; pfam08868 272558007484 Domain of unknown function DUF20; Region: UPF0118; cl00465 272558007485 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 272558007486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558007487 Coenzyme A binding pocket [chemical binding]; other site 272558007488 Protein of unknown function (DUF420); Region: DUF420; cl00989 272558007489 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 272558007490 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 272558007491 Subunit I/III interface [polypeptide binding]; other site 272558007492 Subunit III/IV interface [polypeptide binding]; other site 272558007493 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 272558007494 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 272558007495 D-pathway; other site 272558007496 Putative ubiquinol binding site [chemical binding]; other site 272558007497 Low-spin heme (heme b) binding site [chemical binding]; other site 272558007498 Putative water exit pathway; other site 272558007499 Binuclear center (heme o3/CuB) [ion binding]; other site 272558007500 K-pathway; other site 272558007501 Putative proton exit pathway; other site 272558007502 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 272558007503 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 272558007504 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 272558007505 Cytochrome c; Region: Cytochrom_C; cl11414 272558007506 UbiA prenyltransferase family; Region: UbiA; cl00337 272558007507 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 272558007508 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 272558007509 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 272558007510 IucA / IucC family; Region: IucA_IucC; pfam04183 272558007511 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 272558007512 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 272558007513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558007514 putative substrate translocation pore; other site 272558007515 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 272558007516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007517 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 272558007518 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 272558007519 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 272558007520 IucA / IucC family; Region: IucA_IucC; pfam04183 272558007521 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 272558007522 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 272558007523 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 272558007524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558007525 catalytic residue [active] 272558007526 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 272558007527 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 272558007528 inhibitor-cofactor binding pocket; inhibition site 272558007529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558007530 catalytic residue [active] 272558007531 pyruvate carboxylase; Reviewed; Region: PRK12999 272558007532 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558007533 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558007534 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272558007535 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 272558007536 active site 272558007537 catalytic residues [active] 272558007538 metal binding site [ion binding]; metal-binding site 272558007539 homodimer binding site [polypeptide binding]; other site 272558007540 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 272558007541 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 272558007542 carboxyltransferase (CT) interaction site; other site 272558007543 biotinylation site [posttranslational modification]; other site 272558007544 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 272558007545 Glutaminase; Region: Glutaminase; cl00907 272558007546 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 272558007547 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 272558007548 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 272558007549 putative active site [active] 272558007550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558007551 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 272558007552 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 272558007553 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 272558007554 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 272558007555 G1 box; other site 272558007556 putative GEF interaction site [polypeptide binding]; other site 272558007557 GTP/Mg2+ binding site [chemical binding]; other site 272558007558 Switch I region; other site 272558007559 G2 box; other site 272558007560 G3 box; other site 272558007561 Switch II region; other site 272558007562 G4 box; other site 272558007563 G5 box; other site 272558007564 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 272558007565 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 272558007566 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 272558007567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007568 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 272558007569 active site 272558007570 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 272558007571 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 272558007572 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 272558007573 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 272558007574 FMN binding site [chemical binding]; other site 272558007575 substrate binding site [chemical binding]; other site 272558007576 putative catalytic residue [active] 272558007577 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 272558007578 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 272558007579 homodimer interface [polypeptide binding]; other site 272558007580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558007581 catalytic residue [active] 272558007582 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 272558007583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558007584 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558007585 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558007586 Predicted membrane protein [Function unknown]; Region: COG4129 272558007587 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 272558007588 BCCT family transporter; Region: BCCT; cl00569 272558007589 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 272558007590 catalytic residues [active] 272558007591 Predicted transcriptional regulators [Transcription]; Region: COG1725 272558007592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558007593 DNA-binding site [nucleotide binding]; DNA binding site 272558007594 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272558007595 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 272558007596 Walker A/P-loop; other site 272558007597 ATP binding site [chemical binding]; other site 272558007598 Q-loop/lid; other site 272558007599 ABC transporter signature motif; other site 272558007600 Walker B; other site 272558007601 D-loop; other site 272558007602 H-loop/switch region; other site 272558007603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558007604 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558007605 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 272558007606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558007608 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558007609 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272558007610 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 272558007611 E3 interaction surface; other site 272558007612 lipoyl attachment site [posttranslational modification]; other site 272558007613 e3 binding domain; Region: E3_binding; pfam02817 272558007614 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558007615 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272558007616 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 272558007617 alpha subunit interface [polypeptide binding]; other site 272558007618 TPP binding site [chemical binding]; other site 272558007619 heterodimer interface [polypeptide binding]; other site 272558007620 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558007621 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 272558007622 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 272558007623 TPP-binding site [chemical binding]; other site 272558007624 tetramer interface [polypeptide binding]; other site 272558007625 heterodimer interface [polypeptide binding]; other site 272558007626 phosphorylation loop region [posttranslational modification] 272558007627 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 272558007628 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 272558007629 active site 272558007630 catalytic residues [active] 272558007631 metal binding site [ion binding]; metal-binding site 272558007632 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 272558007633 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558007634 active site 272558007635 motif I; other site 272558007636 motif II; other site 272558007637 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558007638 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 272558007639 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 272558007640 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558007641 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 272558007642 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272558007643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007644 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 272558007645 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272558007646 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272558007647 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 272558007648 dimer interface [polypeptide binding]; other site 272558007649 decamer (pentamer of dimers) interface [polypeptide binding]; other site 272558007650 catalytic triad [active] 272558007651 peroxidatic and resolving cysteines [active] 272558007652 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272558007653 Uncharacterised protein family (UPF0180); Region: UPF0180; cl04214 272558007654 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 272558007655 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 272558007656 metal binding site [ion binding]; metal-binding site 272558007657 putative dimer interface [polypeptide binding]; other site 272558007658 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 272558007659 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 272558007660 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 272558007661 active site 272558007662 trimer interface [polypeptide binding]; other site 272558007663 substrate binding site [chemical binding]; other site 272558007664 CoA binding site [chemical binding]; other site 272558007665 Membrane transport protein; Region: Mem_trans; cl09117 272558007666 DctM-like transporters; Region: DctM; pfam06808 272558007667 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558007668 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272558007669 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272558007670 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272558007671 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 272558007672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007673 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272558007674 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272558007675 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 272558007676 putative active site [active] 272558007677 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 272558007678 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 272558007679 N- and C-terminal domain interface [polypeptide binding]; other site 272558007680 putative active site [active] 272558007681 catalytic site [active] 272558007682 metal binding site [ion binding]; metal-binding site 272558007683 carbohydrate binding site [chemical binding]; other site 272558007684 ATP binding site [chemical binding]; other site 272558007685 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 272558007686 tetramer interface [polypeptide binding]; other site 272558007687 active site 272558007688 Mg2+/Mn2+ binding site [ion binding]; other site 272558007689 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 272558007690 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272558007691 metal binding site [ion binding]; metal-binding site 272558007692 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 272558007693 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272558007694 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 272558007695 Walker A/P-loop; other site 272558007696 ATP binding site [chemical binding]; other site 272558007697 Q-loop/lid; other site 272558007698 ABC transporter signature motif; other site 272558007699 Walker B; other site 272558007700 D-loop; other site 272558007701 H-loop/switch region; other site 272558007702 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 272558007703 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 272558007704 dimer interface [polypeptide binding]; other site 272558007705 conserved gate region; other site 272558007706 putative PBP binding loops; other site 272558007707 ABC-ATPase subunit interface; other site 272558007708 NMT1/THI5 like; Region: NMT1; pfam09084 272558007709 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 272558007710 Mechanosensitive ion channel; Region: MS_channel; pfam00924 272558007711 YtxH-like protein; Region: YtxH; cl02079 272558007712 Protein of unknown function (DUF4025); Region: DUF4025; pfam13217 272558007713 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 272558007714 active site 272558007715 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558007716 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 272558007717 NMT1-like family; Region: NMT1_2; cl15260 272558007718 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272558007719 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 272558007720 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558007721 active site 272558007722 motif I; other site 272558007723 motif II; other site 272558007724 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558007725 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 272558007726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558007727 putative substrate translocation pore; other site 272558007728 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 272558007729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558007730 DNA-binding site [nucleotide binding]; DNA binding site 272558007731 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 272558007732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558007733 homodimer interface [polypeptide binding]; other site 272558007734 catalytic residue [active] 272558007735 Transposase domain (DUF772); Region: DUF772; cl12084 272558007736 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558007737 FtsX-like permease family; Region: FtsX; cl15850 272558007738 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558007739 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 272558007740 Walker A/P-loop; other site 272558007741 ATP binding site [chemical binding]; other site 272558007742 Q-loop/lid; other site 272558007743 ABC transporter signature motif; other site 272558007744 Walker B; other site 272558007745 D-loop; other site 272558007746 H-loop/switch region; other site 272558007747 RDD family; Region: RDD; cl00746 272558007748 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 272558007749 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 272558007750 Mg2+ binding site [ion binding]; other site 272558007751 G-X-G motif; other site 272558007752 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558007753 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 272558007754 active site 272558007755 phosphorylation site [posttranslational modification] 272558007756 intermolecular recognition site; other site 272558007757 dimerization interface [polypeptide binding]; other site 272558007758 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 272558007759 DNA binding site [nucleotide binding] 272558007760 Peptidase family M48; Region: Peptidase_M48; cl12018 272558007761 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558007762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007763 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558007764 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272558007765 Sodium:solute symporter family; Region: SSF; cl00456 272558007766 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 272558007767 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; cl15691 272558007768 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 272558007769 active site 272558007770 ATP binding site [chemical binding]; other site 272558007771 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 272558007772 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 272558007773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558007774 Helix-turn-helix domains; Region: HTH; cl00088 272558007775 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 272558007776 dimerization interface [polypeptide binding]; other site 272558007777 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 272558007778 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272558007779 hinge; other site 272558007780 active site 272558007781 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272558007782 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 272558007783 Response regulator receiver domain; Region: Response_reg; pfam00072 272558007784 active site 272558007785 phosphorylation site [posttranslational modification] 272558007786 intermolecular recognition site; other site 272558007787 dimerization interface [polypeptide binding]; other site 272558007788 YcbB domain; Region: YcbB; pfam08664 272558007789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558007790 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 272558007791 ATP binding site [chemical binding]; other site 272558007792 Mg2+ binding site [ion binding]; other site 272558007793 G-X-G motif; other site 272558007794 Glutaminase; Region: Glutaminase; cl00907 272558007795 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272558007796 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558007797 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272558007798 NAD(P) binding site [chemical binding]; other site 272558007799 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558007800 Cupin domain; Region: Cupin_2; cl09118 272558007801 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 272558007802 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 272558007803 domain; Region: Glyco_hydro_2; pfam00703 272558007804 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 272558007805 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558007806 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 272558007807 dimer interface [polypeptide binding]; other site 272558007808 conserved gate region; other site 272558007809 putative PBP binding loops; other site 272558007810 ABC-ATPase subunit interface; other site 272558007811 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 272558007812 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 272558007813 dimer interface [polypeptide binding]; other site 272558007814 conserved gate region; other site 272558007815 putative PBP binding loops; other site 272558007816 ABC-ATPase subunit interface; other site 272558007817 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558007818 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 272558007819 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558007820 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 272558007821 Histidine kinase; Region: His_kinase; pfam06580 272558007822 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 272558007823 ATP binding site [chemical binding]; other site 272558007824 Mg2+ binding site [ion binding]; other site 272558007825 G-X-G motif; other site 272558007826 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558007827 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 272558007828 active site 272558007829 phosphorylation site [posttranslational modification] 272558007830 intermolecular recognition site; other site 272558007831 dimerization interface [polypeptide binding]; other site 272558007832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558007833 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272558007834 Cysteine-rich domain; Region: CCG; pfam02754 272558007835 Cysteine-rich domain; Region: CCG; pfam02754 272558007836 FAD binding domain; Region: FAD_binding_4; pfam01565 272558007837 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 272558007838 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 272558007839 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 272558007840 Helix-turn-helix domains; Region: HTH; cl00088 272558007841 Tetratricopeptide repeat; Region: TPR_12; pfam13424 272558007842 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 272558007843 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; cl15691 272558007844 active site 272558007845 ATP binding site [chemical binding]; other site 272558007846 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558007847 active site 272558007848 substrate binding site [chemical binding]; other site 272558007849 ATP binding site [chemical binding]; other site 272558007850 activation loop (A-loop); other site 272558007851 Protein of unknown function (DUF4017); Region: DUF4017; pfam13209 272558007852 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 272558007853 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 272558007854 Glutamate binding site [chemical binding]; other site 272558007855 homodimer interface [polypeptide binding]; other site 272558007856 NAD binding site [chemical binding]; other site 272558007857 catalytic residues [active] 272558007858 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 272558007859 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272558007860 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 272558007861 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 272558007862 Walker A motif; other site 272558007863 ATP binding site [chemical binding]; other site 272558007864 Walker B motif; other site 272558007865 arginine finger; other site 272558007866 Helix-turn-helix domains; Region: HTH; cl00088 272558007867 Proline dehydrogenase; Region: Pro_dh; cl03282 272558007868 DNA polymerase IV; Reviewed; Region: PRK03103 272558007869 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 272558007870 active site 272558007871 DNA binding site [nucleotide binding] 272558007872 YolD-like protein; Region: YolD; pfam08863 272558007873 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 272558007874 nucleotide binding site/active site [active] 272558007875 HIT family signature motif; other site 272558007876 catalytic residue [active] 272558007877 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 272558007878 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272558007879 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 272558007880 EamA-like transporter family; Region: EamA; cl01037 272558007881 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558007882 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558007883 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272558007884 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272558007885 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 272558007886 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 272558007887 active site 272558007888 phosphorylation site [posttranslational modification] 272558007889 intermolecular recognition site; other site 272558007890 dimerization interface [polypeptide binding]; other site 272558007891 Helix-turn-helix domains; Region: HTH; cl00088 272558007892 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 272558007893 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 272558007894 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 272558007895 ATP binding site [chemical binding]; other site 272558007896 Mg2+ binding site [ion binding]; other site 272558007897 G-X-G motif; other site 272558007898 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272558007899 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 272558007900 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 272558007901 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 272558007902 active site 272558007903 catalytic residues [active] 272558007904 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 272558007905 N- and C-terminal domain interface [polypeptide binding]; other site 272558007906 D-xylulose kinase; Region: XylB; TIGR01312 272558007907 active site 272558007908 catalytic site [active] 272558007909 metal binding site [ion binding]; metal-binding site 272558007910 xylulose binding site [chemical binding]; other site 272558007911 putative ATP binding site [chemical binding]; other site 272558007912 homodimer interface [polypeptide binding]; other site 272558007913 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 272558007914 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 272558007915 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 272558007916 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 272558007917 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 272558007918 intersubunit interface [polypeptide binding]; other site 272558007919 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 272558007920 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272558007921 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 272558007922 E3 interaction surface; other site 272558007923 lipoyl attachment site [posttranslational modification]; other site 272558007924 e3 binding domain; Region: E3_binding; pfam02817 272558007925 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272558007926 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272558007927 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 272558007928 alpha subunit interface [polypeptide binding]; other site 272558007929 TPP binding site [chemical binding]; other site 272558007930 heterodimer interface [polypeptide binding]; other site 272558007931 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558007932 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 272558007933 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 272558007934 tetramer interface [polypeptide binding]; other site 272558007935 TPP-binding site [chemical binding]; other site 272558007936 heterodimer interface [polypeptide binding]; other site 272558007937 phosphorylation loop region [posttranslational modification] 272558007938 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 272558007939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007941 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558007942 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558007943 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 272558007944 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 272558007945 NAD binding site [chemical binding]; other site 272558007946 Phe binding site; other site 272558007947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558007948 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272558007949 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 272558007950 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 272558007951 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 272558007952 Walker A motif; other site 272558007953 ATP binding site [chemical binding]; other site 272558007954 Walker B motif; other site 272558007955 arginine finger; other site 272558007956 Helix-turn-helix domains; Region: HTH; cl00088 272558007957 Protein of unknown function (DUF2627); Region: DUF2627; pfam11118 272558007958 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 272558007959 Ligand binding site; other site 272558007960 Putative Catalytic site; other site 272558007961 DXD motif; other site 272558007962 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 272558007963 Thiamine pyrophosphokinase; Region: TPK; cl08415 272558007964 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 272558007965 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 272558007966 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 272558007967 active site 272558007968 phosphorylation site [posttranslational modification] 272558007969 intermolecular recognition site; other site 272558007970 dimerization interface [polypeptide binding]; other site 272558007971 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 272558007972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558007973 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558007974 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 272558007975 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 272558007976 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 272558007977 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 272558007978 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 272558007979 Walker A/P-loop; other site 272558007980 ATP binding site [chemical binding]; other site 272558007981 Q-loop/lid; other site 272558007982 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 272558007983 ABC transporter signature motif; other site 272558007984 Walker B; other site 272558007985 D-loop; other site 272558007986 H-loop/switch region; other site 272558007987 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 272558007988 arginine repressor; Provisional; Region: PRK04280 272558007989 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 272558007990 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 272558007991 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 272558007992 RNA binding surface [nucleotide binding]; other site 272558007993 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 272558007994 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 272558007995 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 272558007996 TPP-binding site; other site 272558007997 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 272558007998 PYR/PP interface [polypeptide binding]; other site 272558007999 dimer interface [polypeptide binding]; other site 272558008000 TPP binding site [chemical binding]; other site 272558008001 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272558008002 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272558008003 substrate binding pocket [chemical binding]; other site 272558008004 chain length determination region; other site 272558008005 substrate-Mg2+ binding site; other site 272558008006 catalytic residues [active] 272558008007 aspartate-rich region 1; other site 272558008008 active site lid residues [active] 272558008009 aspartate-rich region 2; other site 272558008010 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 272558008011 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272558008012 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 272558008013 generic binding surface II; other site 272558008014 generic binding surface I; other site 272558008015 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 272558008016 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272558008017 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272558008018 homodimer interface [polypeptide binding]; other site 272558008019 NADP binding site [chemical binding]; other site 272558008020 substrate binding site [chemical binding]; other site 272558008021 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 272558008022 putative RNA binding site [nucleotide binding]; other site 272558008023 Asp23 family; Region: Asp23; cl00574 272558008024 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272558008025 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558008026 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558008027 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272558008028 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272558008029 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 272558008030 carboxyltransferase (CT) interaction site; other site 272558008031 biotinylation site [posttranslational modification]; other site 272558008032 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 272558008033 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 272558008034 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl09803 272558008035 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 272558008036 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272558008037 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 272558008038 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 272558008039 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 272558008040 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 272558008041 Walker A motif; other site 272558008042 ATP binding site [chemical binding]; other site 272558008043 Walker B motif; other site 272558008044 Protein of unknown function (DUF2619); Region: DUF2619; pfam10942 272558008045 elongation factor P; Validated; Region: PRK00529 272558008046 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272558008047 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 272558008048 RNA binding site [nucleotide binding]; other site 272558008049 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 272558008050 RNA binding site [nucleotide binding]; other site 272558008051 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272558008052 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272558008053 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 272558008054 active site 272558008055 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 272558008056 trimer interface [polypeptide binding]; other site 272558008057 active site 272558008058 dimer interface [polypeptide binding]; other site 272558008059 Conserved membrane protein YqhR; Region: YqhR; pfam11085 272558008060 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 272558008061 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 272558008062 nucleophile elbow; other site 272558008063 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 272558008064 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 272558008065 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 272558008066 manganese transport transcriptional regulator; Provisional; Region: PRK03902 272558008067 Helix-turn-helix domains; Region: HTH; cl00088 272558008068 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272558008069 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 272558008070 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 272558008071 FeS/SAM binding site; other site 272558008072 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08115 272558008073 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 272558008074 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 272558008075 active site 272558008076 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 272558008077 homodimer interface [polypeptide binding]; other site 272558008078 substrate-cofactor binding pocket; other site 272558008079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008080 Aminotransferase class IV; Region: Aminotran_4; pfam01063 272558008081 catalytic residue [active] 272558008082 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 272558008083 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272558008084 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 272558008085 active site residue [active] 272558008086 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 272558008087 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 272558008088 tetramer interface [polypeptide binding]; other site 272558008089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008090 catalytic residue [active] 272558008091 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 272558008092 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 272558008093 tetramer interface [polypeptide binding]; other site 272558008094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008095 catalytic residue [active] 272558008096 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 272558008097 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 272558008098 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 272558008099 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 272558008100 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 272558008101 ATP binding site [chemical binding]; other site 272558008102 putative Mg++ binding site [ion binding]; other site 272558008103 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 272558008104 nucleotide binding region [chemical binding]; other site 272558008105 ATP-binding site [chemical binding]; other site 272558008106 Bacterial protein YqhG of unknown function; Region: YqhG; pfam11079 272558008107 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 272558008108 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558008109 Protein of unknown function (DUF2626); Region: DUF2626; pfam11117 272558008110 YqzE-like protein; Region: YqzE; pfam14038 272558008111 ComG operon protein 7; Region: ComGG; pfam14173 272558008112 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 272558008113 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272558008114 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 272558008115 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 272558008116 Domain of unknown function DUF37; Region: DUF37; cl00506 272558008117 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 272558008118 catalytic residues [active] 272558008119 dimer interface [polypeptide binding]; other site 272558008120 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272558008121 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 272558008122 Type II/IV secretion system protein; Region: T2SE; pfam00437 272558008123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008124 Walker A motif; other site 272558008125 ATP binding site [chemical binding]; other site 272558008126 Walker B motif; other site 272558008127 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272558008128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008129 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 272558008130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558008131 Zn2+ binding site [ion binding]; other site 272558008132 Mg2+ binding site [ion binding]; other site 272558008133 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 272558008134 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 272558008135 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 272558008136 Transposase domain (DUF772); Region: DUF772; cl15789 272558008137 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558008138 Transposase domain (DUF772); Region: DUF772; cl15789 272558008139 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558008140 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 272558008141 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272558008142 NAD binding site [chemical binding]; other site 272558008143 homotetramer interface [polypeptide binding]; other site 272558008144 homodimer interface [polypeptide binding]; other site 272558008145 substrate binding site [chemical binding]; other site 272558008146 active site 272558008147 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272558008148 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 272558008149 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 272558008150 Ligand Binding Site [chemical binding]; other site 272558008151 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 272558008152 Bacillus subtilis PrpE and related proteins, metallophosphatase domain; Region: MPP_PrpE; cd07423 272558008153 active site 272558008154 metal binding site [ion binding]; metal-binding site 272558008155 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272558008156 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 272558008157 active site 272558008158 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272558008159 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 272558008160 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 272558008161 putative active site [active] 272558008162 putative metal binding residues [ion binding]; other site 272558008163 signature motif; other site 272558008164 putative triphosphate binding site [ion binding]; other site 272558008165 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 272558008166 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 272558008167 N-acetyl-D-glucosamine binding site [chemical binding]; other site 272558008168 catalytic residue [active] 272558008169 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 272558008170 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 272558008171 putative molybdopterin cofactor binding site [chemical binding]; other site 272558008172 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 272558008173 molybdopterin cofactor binding site; other site 272558008174 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 272558008175 apolar tunnel; other site 272558008176 heme binding site [chemical binding]; other site 272558008177 dimerization interface [polypeptide binding]; other site 272558008178 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 272558008179 Thioredoxin; Region: Thioredoxin_5; pfam13743 272558008180 catalytic residues [active] 272558008181 oligoendopeptidase F; Region: pepF; TIGR00181 272558008182 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 272558008183 active site 272558008184 Zn binding site [ion binding]; other site 272558008185 Competence protein CoiA-like family; Region: CoiA; cl11541 272558008186 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 272558008187 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 272558008188 putative active site [active] 272558008189 catalytic site [active] 272558008190 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 272558008191 putative active site [active] 272558008192 catalytic site [active] 272558008193 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 272558008194 Integral membrane protein TerC family; Region: TerC; cl10468 272558008195 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 272558008196 ArsC family; Region: ArsC; pfam03960 272558008197 putative catalytic residues [active] 272558008198 thiol/disulfide switch; other site 272558008199 Haemolysin-III related; Region: HlyIII; cl03831 272558008200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 272558008201 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 272558008202 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272558008203 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 272558008204 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 272558008205 catalytic residues [active] 272558008206 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272558008207 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272558008208 active site 272558008209 HIGH motif; other site 272558008210 dimer interface [polypeptide binding]; other site 272558008211 KMSKS motif; other site 272558008212 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 272558008213 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 272558008214 pantothenate kinase; Provisional; Region: PRK05439 272558008215 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 272558008216 ATP-binding site [chemical binding]; other site 272558008217 CoA-binding site [chemical binding]; other site 272558008218 Mg2+-binding site [ion binding]; other site 272558008219 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272558008220 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 272558008221 cell division suppressor protein YneA; Provisional; Region: PRK14125 272558008222 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 272558008223 putative peptidoglycan binding site; other site 272558008224 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272558008225 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 272558008226 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272558008227 active site 272558008228 NTP binding site [chemical binding]; other site 272558008229 metal binding triad [ion binding]; metal-binding site 272558008230 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272558008231 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 272558008232 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 272558008233 dimer interface [polypeptide binding]; other site 272558008234 active site 272558008235 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 272558008236 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 272558008237 dimer interface [polypeptide binding]; other site 272558008238 active site 272558008239 CoA binding pocket [chemical binding]; other site 272558008240 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 272558008241 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 272558008242 S-adenosylmethionine binding site [chemical binding]; other site 272558008243 ComZ; Region: ComZ; pfam10815 272558008244 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 272558008245 putative ligand binding site [chemical binding]; other site 272558008246 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272558008247 extended (e) SDRs; Region: SDR_e; cd08946 272558008248 NAD(P) binding site [chemical binding]; other site 272558008249 substrate binding site [chemical binding]; other site 272558008250 active site 272558008251 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272558008252 YjzC-like protein; Region: YjzC; pfam14168 272558008253 ornithine carbamoyltransferase; Provisional; Region: PRK00779 272558008254 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 272558008255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558008256 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 272558008257 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558008258 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558008259 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 272558008260 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272558008261 ATP-grasp domain; Region: ATP-grasp_4; cl03087 272558008262 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 272558008263 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 272558008264 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 272558008265 catalytic site [active] 272558008266 subunit interface [polypeptide binding]; other site 272558008267 acetylornithine aminotransferase; Provisional; Region: argD; PRK02936 272558008268 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 272558008269 inhibitor-cofactor binding pocket; inhibition site 272558008270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008271 catalytic residue [active] 272558008272 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 272558008273 nucleotide binding site [chemical binding]; other site 272558008274 N-acetyl-L-glutamate binding site [chemical binding]; other site 272558008275 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 272558008276 heterotetramer interface [polypeptide binding]; other site 272558008277 active site pocket [active] 272558008278 cleavage site 272558008279 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 272558008280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558008281 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272558008282 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272558008283 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 272558008284 Ca binding site [ion binding]; other site 272558008285 active site 272558008286 catalytic site [active] 272558008287 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 272558008288 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 272558008289 Cu(I) binding site [ion binding]; other site 272558008290 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 272558008291 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 272558008292 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 272558008293 active site 272558008294 motif I; other site 272558008295 motif II; other site 272558008296 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558008297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558008298 Coenzyme A binding pocket [chemical binding]; other site 272558008299 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 272558008300 non-specific DNA binding site [nucleotide binding]; other site 272558008301 salt bridge; other site 272558008302 sequence-specific DNA binding site [nucleotide binding]; other site 272558008303 Cupin domain; Region: Cupin_2; cl09118 272558008304 AzlC protein; Region: AzlC; cl00570 272558008305 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 272558008306 Uncharacterized conserved protein [Function unknown]; Region: COG4715 272558008307 SWIM zinc finger; Region: SWIM; cl15408 272558008308 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272558008309 SNF2 Helicase protein; Region: DUF3670; pfam12419 272558008310 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 272558008311 ATP binding site [chemical binding]; other site 272558008312 putative Mg++ binding site [ion binding]; other site 272558008313 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 272558008314 nucleotide binding region [chemical binding]; other site 272558008315 ATP-binding site [chemical binding]; other site 272558008316 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 272558008317 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272558008318 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558008319 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558008320 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272558008321 esterase; Provisional; Region: PRK10566 272558008322 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 272558008323 active site residue [active] 272558008324 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 272558008325 Domain of unknown function DUF20; Region: UPF0118; pfam01594 272558008326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558008327 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558008328 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558008329 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558008330 DNA binding site [nucleotide binding] 272558008331 domain linker motif; other site 272558008332 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 272558008333 putative dimerization interface [polypeptide binding]; other site 272558008334 putative ligand binding site [chemical binding]; other site 272558008335 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 272558008336 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 272558008337 dimer interface [polypeptide binding]; other site 272558008338 conserved gate region; other site 272558008339 putative PBP binding loops; other site 272558008340 ABC-ATPase subunit interface; other site 272558008341 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558008342 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 272558008343 dimer interface [polypeptide binding]; other site 272558008344 conserved gate region; other site 272558008345 putative PBP binding loops; other site 272558008346 ABC-ATPase subunit interface; other site 272558008347 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 272558008348 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 272558008349 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 272558008350 homodimer interface [polypeptide binding]; other site 272558008351 maltodextrin glucosidase; Provisional; Region: PRK10785 272558008352 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 272558008353 active site 272558008354 homodimer interface [polypeptide binding]; other site 272558008355 catalytic site [active] 272558008356 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 272558008357 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 272558008358 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 272558008359 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 272558008360 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 272558008361 putative substrate translocation pore; other site 272558008362 LysE type translocator; Region: LysE; cl00565 272558008363 conserved hypothetical protein; Region: TIGR02466 272558008364 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 272558008365 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272558008366 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272558008367 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 272558008368 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 272558008369 active site 272558008370 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 272558008371 MatE; Region: MatE; cl10513 272558008372 MatE; Region: MatE; cl10513 272558008373 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272558008374 NMT1-like family; Region: NMT1_2; cl15260 272558008375 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558008376 DctM-like transporters; Region: DctM; pfam06808 272558008377 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272558008378 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272558008379 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272558008380 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 272558008381 putative active site [active] 272558008382 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 272558008383 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 272558008384 inhibitor-cofactor binding pocket; inhibition site 272558008385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008386 catalytic residue [active] 272558008387 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 272558008388 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 272558008389 FeS/SAM binding site; other site 272558008390 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558008391 DctM-like transporters; Region: DctM; pfam06808 272558008392 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 272558008393 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272558008394 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 272558008395 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 272558008396 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 272558008397 active site 272558008398 phosphorylation site [posttranslational modification] 272558008399 intermolecular recognition site; other site 272558008400 dimerization interface [polypeptide binding]; other site 272558008401 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 272558008402 Walker A motif; other site 272558008403 ATP binding site [chemical binding]; other site 272558008404 Walker B motif; other site 272558008405 arginine finger; other site 272558008406 Helix-turn-helix domains; Region: HTH; cl00088 272558008407 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272558008408 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 272558008409 substrate binding pocket [chemical binding]; other site 272558008410 membrane-bound complex binding site; other site 272558008411 hinge residues; other site 272558008412 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 272558008413 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272558008414 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 272558008415 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 272558008416 dimer interface [polypeptide binding]; other site 272558008417 phosphorylation site [posttranslational modification] 272558008418 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 272558008419 ATP binding site [chemical binding]; other site 272558008420 Mg2+ binding site [ion binding]; other site 272558008421 G-X-G motif; other site 272558008422 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272558008423 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 272558008424 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 272558008425 Radical SAM superfamily; Region: Radical_SAM; pfam04055 272558008426 FeS/SAM binding site; other site 272558008427 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 272558008428 dimer interface [polypeptide binding]; other site 272558008429 FMN binding site [chemical binding]; other site 272558008430 NADPH bind site [chemical binding]; other site 272558008431 membrane ATPase/protein kinase; Provisional; Region: PRK09435 272558008432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008433 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 272558008434 Walker A; other site 272558008435 Walker A/P-loop; other site 272558008436 ATP binding site [chemical binding]; other site 272558008437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008438 G4 box; other site 272558008439 G5 box; other site 272558008440 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 272558008441 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 272558008442 active site 272558008443 substrate binding site [chemical binding]; other site 272558008444 coenzyme B12 binding site [chemical binding]; other site 272558008445 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272558008446 B12 binding site [chemical binding]; other site 272558008447 cobalt ligand [ion binding]; other site 272558008448 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 272558008449 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 272558008450 heterodimer interface [polypeptide binding]; other site 272558008451 substrate interaction site [chemical binding]; other site 272558008452 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 272558008453 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 272558008454 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 272558008455 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 272558008456 Helix-turn-helix domains; Region: HTH; cl00088 272558008457 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 272558008458 IDEAL domain; Region: IDEAL; cl07452 272558008459 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 272558008460 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272558008461 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558008462 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272558008463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558008464 MULE transposase domain; Region: MULE; pfam10551 272558008465 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558008466 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558008467 Response regulator receiver domain; Region: Response_reg; pfam00072 272558008468 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 272558008469 active site 272558008470 phosphorylation site [posttranslational modification] 272558008471 intermolecular recognition site; other site 272558008472 dimerization interface [polypeptide binding]; other site 272558008473 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 272558008474 putative CheA interaction surface; other site 272558008475 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 272558008476 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 272558008477 putative binding surface; other site 272558008478 active site 272558008479 P2 response regulator binding domain; Region: P2; pfam07194 272558008480 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 272558008481 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 272558008482 ATP binding site [chemical binding]; other site 272558008483 Mg2+ binding site [ion binding]; other site 272558008484 G-X-G motif; other site 272558008485 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 272558008486 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272558008487 metal binding site [ion binding]; metal-binding site 272558008488 active site 272558008489 I-site; other site 272558008490 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 272558008491 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 272558008492 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 272558008493 motif II; other site 272558008494 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 272558008495 NMT1-like family; Region: NMT1_2; cl15260 272558008496 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 272558008497 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 272558008498 Walker A/P-loop; other site 272558008499 ATP binding site [chemical binding]; other site 272558008500 Q-loop/lid; other site 272558008501 ABC transporter signature motif; other site 272558008502 Walker B; other site 272558008503 D-loop; other site 272558008504 H-loop/switch region; other site 272558008505 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272558008506 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 272558008507 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 272558008508 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 272558008509 dimer interface [polypeptide binding]; other site 272558008510 conserved gate region; other site 272558008511 putative PBP binding loops; other site 272558008512 ABC-ATPase subunit interface; other site 272558008513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558008514 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558008515 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 272558008516 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 272558008517 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008519 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272558008520 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 272558008521 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272558008522 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272558008523 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558008524 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 272558008525 Arginase family; Region: Arginase; cl00306 272558008526 CrcB-like protein; Region: CRCB; cl09114 272558008527 CrcB-like protein; Region: CRCB; cl09114 272558008528 YusW-like protein; Region: YusW; pfam14039 272558008529 YusW-like protein; Region: YusW; pfam14039 272558008530 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 272558008531 PhoU domain; Region: PhoU; pfam01895 272558008532 PhoU domain; Region: PhoU; pfam01895 272558008533 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 272558008534 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 272558008535 Walker A/P-loop; other site 272558008536 ATP binding site [chemical binding]; other site 272558008537 Q-loop/lid; other site 272558008538 ABC transporter signature motif; other site 272558008539 Walker B; other site 272558008540 D-loop; other site 272558008541 H-loop/switch region; other site 272558008542 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 272558008543 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 272558008544 dimer interface [polypeptide binding]; other site 272558008545 conserved gate region; other site 272558008546 putative PBP binding loops; other site 272558008547 ABC-ATPase subunit interface; other site 272558008548 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 272558008549 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 272558008550 dimer interface [polypeptide binding]; other site 272558008551 conserved gate region; other site 272558008552 putative PBP binding loops; other site 272558008553 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 272558008554 ABC-ATPase subunit interface; other site 272558008555 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 272558008556 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 272558008557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558008558 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 272558008559 dimerization interface [polypeptide binding]; other site 272558008560 putative DNA binding site [nucleotide binding]; other site 272558008561 putative Zn2+ binding site [ion binding]; other site 272558008562 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272558008563 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272558008564 active site 272558008565 arsenical pump membrane protein; Provisional; Region: PRK15445 272558008566 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 272558008567 transmembrane helices; other site 272558008568 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 272558008569 dimerization interface [polypeptide binding]; other site 272558008570 putative DNA binding site [nucleotide binding]; other site 272558008571 putative Zn2+ binding site [ion binding]; other site 272558008572 maltose O-acetyltransferase; Provisional; Region: PRK10092 272558008573 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 272558008574 active site 272558008575 substrate binding site [chemical binding]; other site 272558008576 trimer interface [polypeptide binding]; other site 272558008577 CoA binding site [chemical binding]; other site 272558008578 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558008579 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 272558008580 Protein of unknown function (DUF819); Region: DUF819; cl02317 272558008581 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 272558008582 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 272558008583 active site 272558008584 NlpC/P60 family; Region: NLPC_P60; cl11438 272558008585 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 272558008586 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 272558008587 active site 272558008588 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 272558008589 Protein of unknown function (DUF464); Region: DUF464; cl01080 272558008590 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 272558008591 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272558008592 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 272558008593 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 272558008594 oligonucleotide binding site [chemical binding]; other site 272558008595 homodimer interface [polypeptide binding]; other site 272558008596 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 272558008597 active site 272558008598 putative substrate binding region [chemical binding]; other site 272558008599 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558008600 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 272558008601 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 272558008602 GTP binding site; other site 272558008603 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 272558008604 MoaE interaction surface [polypeptide binding]; other site 272558008605 MoeB interaction surface [polypeptide binding]; other site 272558008606 thiocarboxylated glycine; other site 272558008607 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 272558008608 MoaE homodimer interface [polypeptide binding]; other site 272558008609 MoaD interaction [polypeptide binding]; other site 272558008610 active site residues [active] 272558008611 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 272558008612 Walker A motif; other site 272558008613 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 272558008614 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 272558008615 dimer interface [polypeptide binding]; other site 272558008616 putative functional site; other site 272558008617 putative MPT binding site; other site 272558008618 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 272558008619 MPT binding site; other site 272558008620 trimer interface [polypeptide binding]; other site 272558008621 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 272558008622 trimer interface [polypeptide binding]; other site 272558008623 dimer interface [polypeptide binding]; other site 272558008624 putative active site [active] 272558008625 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 272558008626 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 272558008627 active site 272558008628 phosphorylation site [posttranslational modification] 272558008629 intermolecular recognition site; other site 272558008630 dimerization interface [polypeptide binding]; other site 272558008631 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 272558008632 proposed catalytic triad [active] 272558008633 conserved cys residue [active] 272558008634 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272558008635 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 272558008636 septum site-determining protein MinD; Region: minD_bact; TIGR01968 272558008637 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 272558008638 Switch I; other site 272558008639 Switch II; other site 272558008640 septum formation inhibitor; Reviewed; Region: minC; PRK00513 272558008641 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 272558008642 rod shape-determining protein MreD; Region: MreD; cl01087 272558008643 rod shape-determining protein MreC; Provisional; Region: PRK13922 272558008644 rod shape-determining protein MreC; Region: MreC; pfam04085 272558008645 rod shape-determining protein MreB; Provisional; Region: PRK13927 272558008646 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 272558008647 ATP binding site [chemical binding]; other site 272558008648 gelsolin binding site; other site 272558008649 profilin binding site; other site 272558008650 hypothetical protein; Reviewed; Region: PRK00024 272558008651 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 272558008652 MPN+ (JAMM) motif; other site 272558008653 Zinc-binding site [ion binding]; other site 272558008654 Maf-like protein; Region: Maf; pfam02545 272558008655 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 272558008656 active site 272558008657 dimer interface [polypeptide binding]; other site 272558008658 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 272558008659 GAF domain; Region: GAF; cl00853 272558008660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 272558008661 metal binding site [ion binding]; metal-binding site 272558008662 active site 272558008663 I-site; other site 272558008664 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 272558008665 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 272558008666 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272558008667 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 272558008668 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 272558008669 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272558008670 active site 272558008671 HIGH motif; other site 272558008672 nucleotide binding site [chemical binding]; other site 272558008673 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 272558008674 active site 272558008675 KMSKS motif; other site 272558008676 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 272558008677 tRNA binding surface [nucleotide binding]; other site 272558008678 anticodon binding site; other site 272558008679 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 272558008680 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; cl15691 272558008681 stage VI sporulation protein D; Region: spore_VI_D; TIGR02907 272558008682 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 272558008683 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 272558008684 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 272558008685 inhibitor-cofactor binding pocket; inhibition site 272558008686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558008687 catalytic residue [active] 272558008688 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 272558008689 dimer interface [polypeptide binding]; other site 272558008690 active site 272558008691 Schiff base residues; other site 272558008692 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 272558008693 active site 272558008694 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 272558008695 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 272558008696 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 272558008697 domain interfaces; other site 272558008698 active site 272558008699 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 272558008700 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 272558008701 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 272558008702 tRNA; other site 272558008703 putative tRNA binding site [nucleotide binding]; other site 272558008704 putative NADP binding site [chemical binding]; other site 272558008705 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 272558008706 Predicted GTPase [General function prediction only]; Region: COG0218 272558008707 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 272558008708 G1 box; other site 272558008709 GTP/Mg2+ binding site [chemical binding]; other site 272558008710 Switch I region; other site 272558008711 G2 box; other site 272558008712 G3 box; other site 272558008713 Switch II region; other site 272558008714 G4 box; other site 272558008715 G5 box; other site 272558008716 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272558008717 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272558008718 Found in ATP-dependent protease La (LON); Region: LON; smart00464 272558008719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558008720 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 272558008721 Walker A motif; other site 272558008722 ATP binding site [chemical binding]; other site 272558008723 Walker B motif; other site 272558008724 arginine finger; other site 272558008725 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272558008726 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 272558008727 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 272558008728 Walker A motif; other site 272558008729 ATP binding site [chemical binding]; other site 272558008730 Walker B motif; other site 272558008731 arginine finger; other site 272558008732 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272558008733 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272558008734 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272558008735 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 272558008736 Walker A motif; other site 272558008737 ATP binding site [chemical binding]; other site 272558008738 Walker B motif; other site 272558008739 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272558008740 trigger factor; Provisional; Region: tig; PRK01490 272558008741 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272558008742 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272558008743 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 272558008744 TPR motif; other site 272558008745 binding surface 272558008746 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 272558008747 substrate binding site [chemical binding]; other site 272558008748 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 272558008749 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 272558008750 substrate binding site [chemical binding]; other site 272558008751 ligand binding site [chemical binding]; other site 272558008752 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272558008753 tartrate dehydrogenase; Provisional; Region: PRK08194 272558008754 2-isopropylmalate synthase; Validated; Region: PRK00915 272558008755 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 272558008756 active site 272558008757 catalytic residues [active] 272558008758 metal binding site [ion binding]; metal-binding site 272558008759 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 272558008760 ketol-acid reductoisomerase; Provisional; Region: PRK05479 272558008761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558008762 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 272558008763 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 272558008764 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 272558008765 putative valine binding site [chemical binding]; other site 272558008766 dimer interface [polypeptide binding]; other site 272558008767 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 272558008768 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272558008769 PYR/PP interface [polypeptide binding]; other site 272558008770 dimer interface [polypeptide binding]; other site 272558008771 TPP binding site [chemical binding]; other site 272558008772 Dehydratase family; Region: ILVD_EDD; cl00340 272558008773 6-phosphogluconate dehydratase; Region: edd; TIGR01196 272558008774 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 272558008775 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 272558008776 active site 272558008777 metal binding site [ion binding]; metal-binding site 272558008778 homotetramer interface [polypeptide binding]; other site 272558008779 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 272558008780 active site 272558008781 dimerization interface [polypeptide binding]; other site 272558008782 ribonuclease PH; Reviewed; Region: rph; PRK00173 272558008783 Ribonuclease PH; Region: RNase_PH_bact; cd11362 272558008784 hexamer interface [polypeptide binding]; other site 272558008785 active site 272558008786 Sporulation and spore germination; Region: Germane; cl11253 272558008787 Spore germination protein [General function prediction only]; Region: COG5401 272558008788 Sporulation and spore germination; Region: Germane; cl11253 272558008789 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 272558008790 Helix-turn-helix domains; Region: HTH; cl00088 272558008791 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 272558008792 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272558008793 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272558008794 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 272558008795 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 272558008796 dimerization domain swap beta strand [polypeptide binding]; other site 272558008797 regulatory protein interface [polypeptide binding]; other site 272558008798 active site 272558008799 regulatory phosphorylation site [posttranslational modification]; other site 272558008800 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 272558008801 DNA binding residues [nucleotide binding] 272558008802 dimerization interface [polypeptide binding]; other site 272558008803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558008804 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272558008805 Coenzyme A binding pocket [chemical binding]; other site 272558008806 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272558008807 Helix-turn-helix domains; Region: HTH; cl00088 272558008808 Predicted membrane protein [Function unknown]; Region: COG2364 272558008809 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272558008810 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 272558008811 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 272558008812 homotrimer interaction site [polypeptide binding]; other site 272558008813 putative active site [active] 272558008814 Domain of unknown function (DUF4288); Region: DUF4288; pfam14119 272558008815 Protein of unknown function (DUF817); Region: DUF817; cl01520 272558008816 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 272558008817 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 272558008818 nudix motif; other site 272558008819 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 272558008820 active site 272558008821 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 272558008822 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 272558008823 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 272558008824 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 272558008825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558008826 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 272558008827 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 272558008828 putative Iron-sulfur protein interface [polypeptide binding]; other site 272558008829 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 272558008830 proximal heme binding site [chemical binding]; other site 272558008831 distal heme binding site [chemical binding]; other site 272558008832 putative dimer interface [polypeptide binding]; other site 272558008833 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 272558008834 Cation transport protein; Region: TrkH; cl10514 272558008835 Protein of unknown function (DUF2507); Region: DUF2507; pfam10702 272558008836 aspartate kinase; Reviewed; Region: PRK06635 272558008837 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 272558008838 putative nucleotide binding site [chemical binding]; other site 272558008839 putative catalytic residues [active] 272558008840 putative Mg ion binding site [ion binding]; other site 272558008841 putative aspartate binding site [chemical binding]; other site 272558008842 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 272558008843 putative allosteric regulatory site; other site 272558008844 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 272558008845 putative allosteric regulatory residue; other site 272558008846 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272558008847 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272558008848 GIY-YIG motif/motif A; other site 272558008849 active site 272558008850 catalytic site [active] 272558008851 putative DNA binding site [nucleotide binding]; other site 272558008852 metal binding site [ion binding]; metal-binding site 272558008853 UvrB/uvrC motif; Region: UVR; pfam02151 272558008854 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272558008855 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 272558008856 catalytic residues [active] 272558008857 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 272558008858 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 272558008859 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 272558008860 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 272558008861 Ligand binding site [chemical binding]; other site 272558008862 Electron transfer flavoprotein domain; Region: ETF; pfam01012 272558008863 enoyl-CoA hydratase; Provisional; Region: PRK07658 272558008864 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 272558008865 substrate binding site [chemical binding]; other site 272558008866 oxyanion hole (OAH) forming residues; other site 272558008867 trimer interface [polypeptide binding]; other site 272558008868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558008869 Helix-turn-helix domains; Region: HTH; cl00088 272558008870 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 272558008871 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 272558008872 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558008873 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 272558008874 AMP-binding enzyme; Region: AMP-binding; cl15778 272558008875 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 272558008876 Predicted membrane protein [Function unknown]; Region: COG3766 272558008877 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 272558008878 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 272558008879 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 272558008880 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 272558008881 Walker A/P-loop; other site 272558008882 ATP binding site [chemical binding]; other site 272558008883 Q-loop/lid; other site 272558008884 ABC transporter signature motif; other site 272558008885 Walker B; other site 272558008886 D-loop; other site 272558008887 H-loop/switch region; other site 272558008888 Smr domain; Region: Smr; cl02619 272558008889 hypothetical protein; Provisional; Region: PRK08609 272558008890 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 272558008891 active site 272558008892 primer binding site [nucleotide binding]; other site 272558008893 NTP binding site [chemical binding]; other site 272558008894 metal binding triad [ion binding]; metal-binding site 272558008895 Colicin V production protein; Region: Colicin_V; cl00567 272558008896 Cell division protein ZapA; Region: ZapA; cl01146 272558008897 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272558008898 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 272558008899 putative tRNA-binding site [nucleotide binding]; other site 272558008900 B3/4 domain; Region: B3_4; cl11458 272558008901 tRNA synthetase B5 domain; Region: B5; cl08394 272558008902 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 272558008903 dimer interface [polypeptide binding]; other site 272558008904 motif 1; other site 272558008905 motif 3; other site 272558008906 motif 2; other site 272558008907 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 272558008908 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272558008909 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272558008910 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 272558008911 dimer interface [polypeptide binding]; other site 272558008912 motif 1; other site 272558008913 active site 272558008914 motif 2; other site 272558008915 motif 3; other site 272558008916 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272558008917 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272558008918 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272558008919 small acid-soluble spore protein SspI; Provisional; Region: PRK02955; cl07940 272558008920 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558008921 DinB superfamily; Region: DinB_2; pfam12867 272558008922 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558008923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558008924 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558008925 Clp protease; Region: CLP_protease; pfam00574 272558008926 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272558008927 oligomer interface [polypeptide binding]; other site 272558008928 active site residues [active] 272558008929 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_24; cd09012 272558008930 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558008931 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272558008932 FtsX-like permease family; Region: FtsX; pfam02687 272558008933 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558008934 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 272558008935 Walker A/P-loop; other site 272558008936 ATP binding site [chemical binding]; other site 272558008937 Q-loop/lid; other site 272558008938 ABC transporter signature motif; other site 272558008939 Walker B; other site 272558008940 D-loop; other site 272558008941 H-loop/switch region; other site 272558008942 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 272558008943 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 272558008944 Yip1 domain; Region: Yip1; cl12048 272558008945 Predicted transcriptional regulator [Transcription]; Region: COG1959 272558008946 Helix-turn-helix domains; Region: HTH; cl00088 272558008947 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 272558008948 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 272558008949 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 272558008950 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 272558008951 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 272558008952 dimer interface [polypeptide binding]; other site 272558008953 conserved gate region; other site 272558008954 putative PBP binding loops; other site 272558008955 ABC-ATPase subunit interface; other site 272558008956 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 272558008957 dimer interface [polypeptide binding]; other site 272558008958 conserved gate region; other site 272558008959 putative PBP binding loops; other site 272558008960 ABC-ATPase subunit interface; other site 272558008961 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 272558008962 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 272558008963 Walker A/P-loop; other site 272558008964 ATP binding site [chemical binding]; other site 272558008965 Q-loop/lid; other site 272558008966 ABC transporter signature motif; other site 272558008967 Walker B; other site 272558008968 D-loop; other site 272558008969 H-loop/switch region; other site 272558008970 TOBE domain; Region: TOBE_2; cl01440 272558008971 TfoX N-terminal domain; Region: TfoX_N; cl01167 272558008972 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272558008973 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 272558008974 oligomer interface [polypeptide binding]; other site 272558008975 active site 272558008976 metal binding site [ion binding]; metal-binding site 272558008977 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 272558008978 dUTPase; Region: dUTPase_2; pfam08761 272558008979 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 272558008980 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 272558008981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558008982 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558008983 ribosomal protein L20; Region: rpl20; CHL00068 272558008984 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272558008985 23S rRNA binding site [nucleotide binding]; other site 272558008986 L21 binding site [polypeptide binding]; other site 272558008987 L13 binding site [polypeptide binding]; other site 272558008988 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 272558008989 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272558008990 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272558008991 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272558008992 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272558008993 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 272558008994 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272558008995 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 272558008996 active site 272558008997 dimer interface [polypeptide binding]; other site 272558008998 motif 1; other site 272558008999 motif 2; other site 272558009000 motif 3; other site 272558009001 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 272558009002 anticodon binding site; other site 272558009003 YtxC-like family; Region: YtxC; cl08500 272558009004 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 272558009005 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 272558009006 FeS/SAM binding site; other site 272558009007 primosomal protein DnaI; Reviewed; Region: PRK08939 272558009008 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 272558009009 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 272558009010 Walker A motif; other site 272558009011 ATP binding site [chemical binding]; other site 272558009012 Walker B motif; other site 272558009013 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 272558009014 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272558009015 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272558009016 ATP cone domain; Region: ATP-cone; pfam03477 272558009017 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 272558009018 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 272558009019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009020 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 272558009021 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272558009022 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 272558009023 CoA-binding site [chemical binding]; other site 272558009024 ATP-binding [chemical binding]; other site 272558009025 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 272558009026 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 272558009027 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 272558009028 DNA binding site [nucleotide binding] 272558009029 catalytic residue [active] 272558009030 H2TH interface [polypeptide binding]; other site 272558009031 putative catalytic residues [active] 272558009032 turnover-facilitating residue; other site 272558009033 intercalation triad [nucleotide binding]; other site 272558009034 8OG recognition residue [nucleotide binding]; other site 272558009035 putative reading head residues; other site 272558009036 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 272558009037 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 272558009038 DNA polymerase I; Provisional; Region: PRK05755 272558009039 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272558009040 active site 272558009041 metal binding site 1 [ion binding]; metal-binding site 272558009042 putative 5' ssDNA interaction site; other site 272558009043 metal binding site 3; metal-binding site 272558009044 metal binding site 2 [ion binding]; metal-binding site 272558009045 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272558009046 putative DNA binding site [nucleotide binding]; other site 272558009047 putative metal binding site [ion binding]; other site 272558009048 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 272558009049 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272558009050 active site 272558009051 DNA binding site [nucleotide binding] 272558009052 catalytic site [active] 272558009053 HflC protein; Region: hflC; TIGR01932 272558009054 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 272558009055 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 272558009056 HflK protein; Region: hflK; TIGR01933 272558009057 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 272558009058 dimerization interface [polypeptide binding]; other site 272558009059 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 272558009060 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 272558009061 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 272558009062 dimer interface [polypeptide binding]; other site 272558009063 phosphorylation site [posttranslational modification] 272558009064 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 272558009065 ATP binding site [chemical binding]; other site 272558009066 Mg2+ binding site [ion binding]; other site 272558009067 G-X-G motif; other site 272558009068 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558009069 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 272558009070 active site 272558009071 phosphorylation site [posttranslational modification] 272558009072 intermolecular recognition site; other site 272558009073 dimerization interface [polypeptide binding]; other site 272558009074 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 272558009075 DNA binding site [nucleotide binding] 272558009076 malate dehydrogenase; Reviewed; Region: PRK06223 272558009077 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 272558009078 NAD(P) binding site [chemical binding]; other site 272558009079 dimer interface [polypeptide binding]; other site 272558009080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558009081 substrate binding site [chemical binding]; other site 272558009082 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 272558009083 isocitrate dehydrogenase; Validated; Region: PRK06451 272558009084 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 272558009085 dimer interface [polypeptide binding]; other site 272558009086 active site 272558009087 citrylCoA binding site [chemical binding]; other site 272558009088 Citrate synthase; Region: Citrate_synt; pfam00285 272558009089 oxalacetate/citrate binding site [chemical binding]; other site 272558009090 coenzyme A binding site [chemical binding]; other site 272558009091 catalytic triad [active] 272558009092 Protein of unknown function (DUF441); Region: DUF441; cl01041 272558009093 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 272558009094 pyruvate kinase; Provisional; Region: PRK06354 272558009095 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 272558009096 domain interfaces; other site 272558009097 active site 272558009098 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272558009099 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 272558009100 active site 272558009101 ADP/pyrophosphate binding site [chemical binding]; other site 272558009102 dimerization interface [polypeptide binding]; other site 272558009103 allosteric effector site; other site 272558009104 fructose-1,6-bisphosphate binding site; other site 272558009105 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 272558009106 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 272558009107 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272558009108 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 272558009109 Transcriptional regulators [Transcription]; Region: FadR; COG2186 272558009110 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558009111 DNA-binding site [nucleotide binding]; DNA binding site 272558009112 FCD domain; Region: FCD; cl11656 272558009113 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 272558009114 Malic enzyme, N-terminal domain; Region: malic; pfam00390 272558009115 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 272558009116 putative NAD(P) binding site [chemical binding]; other site 272558009117 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 272558009118 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272558009119 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 272558009120 generic binding surface II; other site 272558009121 generic binding surface I; other site 272558009122 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 272558009123 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 272558009124 DHH family; Region: DHH; pfam01368 272558009125 DHHA1 domain; Region: DHHA1; pfam02272 272558009126 YtpI-like protein; Region: YtpI; pfam14007 272558009127 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 272558009128 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558009129 DNA-binding site [nucleotide binding]; DNA binding site 272558009130 DRTGG domain; Region: DRTGG; cl12147 272558009131 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 272558009132 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 272558009133 active site 2 [active] 272558009134 active site 1 [active] 272558009135 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558009136 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272558009137 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272558009138 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 272558009139 active site 272558009140 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 272558009141 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 272558009142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009143 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 272558009144 classical (c) SDRs; Region: SDR_c; cd05233 272558009145 NAD(P) binding site [chemical binding]; other site 272558009146 active site 272558009147 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 272558009148 Ligand Binding Site [chemical binding]; other site 272558009149 argininosuccinate lyase; Provisional; Region: PRK00855 272558009150 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 272558009151 active sites [active] 272558009152 tetramer interface [polypeptide binding]; other site 272558009153 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 272558009154 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 272558009155 ANP binding site [chemical binding]; other site 272558009156 Substrate Binding Site II [chemical binding]; other site 272558009157 Substrate Binding Site I [chemical binding]; other site 272558009158 Transposase domain (DUF772); Region: DUF772; cl15789 272558009159 EcsC protein family; Region: EcsC; pfam12787 272558009160 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 272558009161 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 272558009162 generic binding surface I; other site 272558009163 generic binding surface II; other site 272558009164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558009165 Zn2+ binding site [ion binding]; other site 272558009166 Mg2+ binding site [ion binding]; other site 272558009167 Acetokinase family; Region: Acetate_kinase; cl01029 272558009168 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 272558009169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009170 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 272558009171 dimer interface [polypeptide binding]; other site 272558009172 catalytic triad [active] 272558009173 peroxidatic and resolving cysteines [active] 272558009174 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 272558009175 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 272558009176 RDD family; Region: RDD; cl00746 272558009177 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 272558009178 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 272558009179 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272558009180 tandem repeat interface [polypeptide binding]; other site 272558009181 oligomer interface [polypeptide binding]; other site 272558009182 active site residues [active] 272558009183 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 272558009184 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 272558009185 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 272558009186 active site 272558009187 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 272558009188 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558009189 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 272558009190 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 272558009191 THUMP domain; Region: THUMP; cl12076 272558009192 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 272558009193 Ligand Binding Site [chemical binding]; other site 272558009194 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 272558009195 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272558009196 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558009197 catalytic residue [active] 272558009198 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 272558009199 histidinol-phosphatase; Reviewed; Region: PRK08123 272558009200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558009201 Helix-turn-helix domains; Region: HTH; cl00088 272558009202 GAF domain; Region: GAF; cl00853 272558009203 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 272558009204 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272558009205 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 272558009206 RNA binding surface [nucleotide binding]; other site 272558009207 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272558009208 putative transporter; Provisional; Region: PRK10054 272558009209 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 272558009210 putative substrate translocation pore; other site 272558009211 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 272558009212 dimerization interface [polypeptide binding]; other site 272558009213 putative DNA binding site [nucleotide binding]; other site 272558009214 putative Zn2+ binding site [ion binding]; other site 272558009215 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558009216 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558009217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558009218 Walker A/P-loop; other site 272558009219 ATP binding site [chemical binding]; other site 272558009220 Q-loop/lid; other site 272558009221 ABC transporter signature motif; other site 272558009222 Walker B; other site 272558009223 D-loop; other site 272558009224 H-loop/switch region; other site 272558009225 Predicted membrane protein [Function unknown]; Region: COG1470 272558009226 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272558009227 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 272558009228 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 272558009229 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558009230 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 272558009231 DNA binding residues [nucleotide binding] 272558009232 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 272558009233 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272558009234 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 272558009235 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558009236 active site 272558009237 metal binding site [ion binding]; metal-binding site 272558009238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558009239 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 272558009240 active site 272558009241 metal binding site [ion binding]; metal-binding site 272558009242 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558009243 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 272558009244 active site 272558009245 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 272558009246 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558009247 active site 272558009248 metal binding site [ion binding]; metal-binding site 272558009249 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272558009250 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558009251 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558009252 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272558009253 MgtE intracellular N domain; Region: MgtE_N; cl15244 272558009254 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 272558009255 Divalent cation transporter; Region: MgtE; cl00786 272558009256 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 272558009257 MgtC family; Region: MgtC; cl12207 272558009258 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272558009259 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 272558009260 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272558009261 active site 272558009262 HIGH motif; other site 272558009263 dimer interface [polypeptide binding]; other site 272558009264 KMSKS motif; other site 272558009265 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 272558009266 RNA binding surface [nucleotide binding]; other site 272558009267 Transglycosylase; Region: Transgly; cl07896 272558009268 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272558009269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558009270 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558009271 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558009272 DNA binding site [nucleotide binding] 272558009273 domain linker motif; other site 272558009274 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 272558009275 ligand binding site [chemical binding]; other site 272558009276 dimerization interface [polypeptide binding]; other site 272558009277 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 272558009278 active site 272558009279 catalytic residues [active] 272558009280 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 272558009281 ligand binding site [chemical binding]; other site 272558009282 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 272558009283 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 272558009284 active site 272558009285 active site 272558009286 catalytic residues [active] 272558009287 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 272558009288 active site 272558009289 active site 272558009290 catalytic residues [active] 272558009291 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 272558009292 active site 272558009293 active site 272558009294 catalytic residues [active] 272558009295 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558009296 acetyl-CoA synthetase; Provisional; Region: PRK04319 272558009297 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 272558009298 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558009299 FOG: CBS domain [General function prediction only]; Region: COG0517 272558009300 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 272558009301 C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB; Region: ACT_AcuB; cd04883 272558009302 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 272558009303 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 272558009304 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272558009305 flagellar motor protein MotS; Reviewed; Region: PRK06925 272558009306 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 272558009307 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272558009308 ligand binding site [chemical binding]; other site 272558009309 flagellar motor protein MotP; Reviewed; Region: PRK06926 272558009310 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272558009311 catabolite control protein A; Region: ccpA; TIGR01481 272558009312 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558009313 DNA binding site [nucleotide binding] 272558009314 domain linker motif; other site 272558009315 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 272558009316 dimerization interface [polypeptide binding]; other site 272558009317 effector binding site; other site 272558009318 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 272558009319 Chorismate mutase type II; Region: CM_2; cl00693 272558009320 NeuB family; Region: NeuB; cl00496 272558009321 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 272558009322 Cell division protein FtsA; Region: FtsA; cl11496 272558009323 Cell division protein FtsA; Region: FtsA; cl11496 272558009324 YtxH-like protein; Region: YtxH; cl02079 272558009325 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 272558009326 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 272558009327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558009328 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558009329 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 272558009330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272558009331 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 272558009332 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272558009333 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 272558009334 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 272558009335 active site 272558009336 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272558009337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558009338 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272558009339 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 272558009340 putative tRNA-binding site [nucleotide binding]; other site 272558009341 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 272558009342 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 272558009343 catalytic residues [active] 272558009344 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558009345 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 272558009346 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 272558009347 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 272558009348 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 272558009349 oligomer interface [polypeptide binding]; other site 272558009350 active site 272558009351 metal binding site [ion binding]; metal-binding site 272558009352 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 272558009353 Transcriptional regulator; Region: Transcrip_reg; cl00361 272558009354 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 272558009355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558009356 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 272558009357 S-adenosylmethionine binding site [chemical binding]; other site 272558009358 YtzH-like protein; Region: YtzH; pfam14165 272558009359 Phosphotransferase enzyme family; Region: APH; pfam01636 272558009360 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 272558009361 active site 272558009362 substrate binding site [chemical binding]; other site 272558009363 ATP binding site [chemical binding]; other site 272558009364 pullulanase, type I; Region: pulA_typeI; TIGR02104 272558009365 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 272558009366 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 272558009367 Ca binding site [ion binding]; other site 272558009368 active site 272558009369 catalytic site [active] 272558009370 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 272558009371 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 272558009372 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 272558009373 putative active site [active] 272558009374 putative substrate binding site [chemical binding]; other site 272558009375 putative cosubstrate binding site; other site 272558009376 catalytic site [active] 272558009377 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 272558009378 LrgB-like family; Region: LrgB; cl00596 272558009379 LrgA family; Region: LrgA; cl00608 272558009380 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 272558009381 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 272558009382 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 272558009383 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 272558009384 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 272558009385 dimer interface [polypeptide binding]; other site 272558009386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558009387 catalytic residue [active] 272558009388 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 272558009389 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 272558009390 active site 272558009391 metal binding site [ion binding]; metal-binding site 272558009392 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272558009393 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 272558009394 RNA binding surface [nucleotide binding]; other site 272558009395 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 272558009396 active site 272558009397 uracil binding [chemical binding]; other site 272558009398 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 272558009399 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272558009400 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272558009401 stage V sporulation protein B; Region: spore_V_B; TIGR02900 272558009402 MatE; Region: MatE; cl10513 272558009403 Predicted flavoproteins [General function prediction only]; Region: COG2081 272558009404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009405 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272558009406 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272558009407 HIGH motif; other site 272558009408 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 272558009409 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272558009410 active site 272558009411 KMSKS motif; other site 272558009412 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272558009413 tRNA binding surface [nucleotide binding]; other site 272558009414 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 272558009415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558009416 putative substrate translocation pore; other site 272558009417 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 272558009418 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 272558009419 tetramer interface [polypeptide binding]; other site 272558009420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558009421 catalytic residue [active] 272558009422 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 272558009423 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 272558009424 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 272558009425 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 272558009426 active site clefts [active] 272558009427 zinc binding site [ion binding]; other site 272558009428 dimer interface [polypeptide binding]; other site 272558009429 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 272558009430 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 272558009431 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 272558009432 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 272558009433 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 272558009434 trimer interface [polypeptide binding]; other site 272558009435 putative metal binding site [ion binding]; other site 272558009436 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 272558009437 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 272558009438 intersubunit interface [polypeptide binding]; other site 272558009439 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272558009440 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 272558009441 dimer interface [polypeptide binding]; other site 272558009442 ABC-ATPase subunit interface; other site 272558009443 putative PBP binding regions; other site 272558009444 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558009445 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 272558009446 Walker A/P-loop; other site 272558009447 ATP binding site [chemical binding]; other site 272558009448 Q-loop/lid; other site 272558009449 ABC transporter signature motif; other site 272558009450 Walker B; other site 272558009451 D-loop; other site 272558009452 H-loop/switch region; other site 272558009453 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272558009454 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 272558009455 active site 272558009456 catalytic site [active] 272558009457 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 272558009458 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 272558009459 Walker A/P-loop; other site 272558009460 ATP binding site [chemical binding]; other site 272558009461 Q-loop/lid; other site 272558009462 ABC transporter signature motif; other site 272558009463 Walker B; other site 272558009464 D-loop; other site 272558009465 H-loop/switch region; other site 272558009466 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 272558009467 ABC-ATPase subunit interface; other site 272558009468 dimer interface [polypeptide binding]; other site 272558009469 putative PBP binding regions; other site 272558009470 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 272558009471 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 272558009472 intersubunit interface [polypeptide binding]; other site 272558009473 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009474 heme-binding site [chemical binding]; other site 272558009475 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009476 heme-binding site [chemical binding]; other site 272558009477 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009478 heme-binding site [chemical binding]; other site 272558009479 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 272558009480 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009481 heme-binding site [chemical binding]; other site 272558009482 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009483 heme-binding site [chemical binding]; other site 272558009484 sortase B cell surface sorting signal; Region: srtB_target; TIGR03063 272558009485 heme uptake protein IsdC; Region: IsdC; TIGR03656 272558009486 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 272558009487 heme-binding site [chemical binding]; other site 272558009488 S-adenosylmethionine synthetase; Validated; Region: PRK05250 272558009489 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 272558009490 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 272558009491 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 272558009492 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 272558009493 active site 272558009494 substrate-binding site [chemical binding]; other site 272558009495 metal-binding site [ion binding] 272558009496 ATP binding site [chemical binding]; other site 272558009497 Helix-turn-helix domains; Region: HTH; cl00088 272558009498 DoxX; Region: DoxX; cl00976 272558009499 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 272558009500 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 272558009501 putative metal binding site [ion binding]; other site 272558009502 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 272558009503 active site 272558009504 metal binding site [ion binding]; metal-binding site 272558009505 Dienelactone hydrolase family; Region: DLH; pfam01738 272558009506 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 272558009507 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 272558009508 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 272558009509 nudix motif; other site 272558009510 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 272558009511 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558009512 putative substrate translocation pore; other site 272558009513 YwpF-like protein; Region: YwpF; pfam14183 272558009514 Sporulation inhibitor A; Region: Sda; pfam08970 272558009515 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 272558009516 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 272558009517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558009518 homodimer interface [polypeptide binding]; other site 272558009519 catalytic residue [active] 272558009520 glyoxylate reductase; Reviewed; Region: PRK13243 272558009521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009522 SCP-2 sterol transfer family; Region: SCP2; cl01225 272558009523 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 272558009524 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 272558009525 tetramerization interface [polypeptide binding]; other site 272558009526 NAD(P) binding site [chemical binding]; other site 272558009527 catalytic residues [active] 272558009528 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 272558009529 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 272558009530 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 272558009531 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558009532 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272558009533 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558009534 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558009535 3D domain; Region: 3D; cl01439 272558009536 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272558009537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558009538 DNA-binding site [nucleotide binding]; DNA binding site 272558009539 UTRA domain; Region: UTRA; cl01230 272558009540 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 272558009541 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 272558009542 active site 272558009543 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 272558009544 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 272558009545 putative trimer interface [polypeptide binding]; other site 272558009546 putative CoA binding site [chemical binding]; other site 272558009547 hypothetical protein; Provisional; Region: PRK02947 272558009548 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 272558009549 putative active site [active] 272558009550 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 272558009551 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 272558009552 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 272558009553 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 272558009554 dimer interface [polypeptide binding]; other site 272558009555 ABC-ATPase subunit interface; other site 272558009556 putative PBP binding loops; other site 272558009557 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 272558009558 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 272558009559 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558009560 Helix-turn-helix domains; Region: HTH; cl00088 272558009561 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 272558009562 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 272558009563 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 272558009564 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 272558009565 Cu(I) binding site [ion binding]; other site 272558009566 Protein of unknown function (DUF2512); Region: DUF2512; pfam10710 272558009567 Ion channel; Region: Ion_trans_2; cl11596 272558009568 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 272558009569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009570 YugN-like family; Region: YugN; pfam08868 272558009571 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 272558009572 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 272558009573 active site 272558009574 dimer interface [polypeptide binding]; other site 272558009575 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 272558009576 dimer interface [polypeptide binding]; other site 272558009577 active site 272558009578 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 272558009579 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 272558009580 dimer interface [polypeptide binding]; other site 272558009581 active site 272558009582 metal binding site [ion binding]; metal-binding site 272558009583 Domain of unknown function (DUF378); Region: DUF378; cl00943 272558009584 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 272558009585 general stress protein 13; Validated; Region: PRK08059 272558009586 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 272558009587 RNA binding site [nucleotide binding]; other site 272558009588 helicase 45; Provisional; Region: PTZ00424 272558009589 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558009590 ATP binding site [chemical binding]; other site 272558009591 putative Mg++ binding site [ion binding]; other site 272558009592 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 272558009593 nucleotide binding region [chemical binding]; other site 272558009594 ATP-binding site [chemical binding]; other site 272558009595 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 272558009596 substrate binding site [chemical binding]; other site 272558009597 multimerization interface [polypeptide binding]; other site 272558009598 ATP binding site [chemical binding]; other site 272558009599 hypothetical protein; Validated; Region: PRK07682 272558009600 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 272558009601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558009602 homodimer interface [polypeptide binding]; other site 272558009603 catalytic residue [active] 272558009604 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272558009605 Helix-turn-helix domains; Region: HTH; cl00088 272558009606 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 272558009607 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 272558009608 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 272558009609 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 272558009610 IHF dimer interface [polypeptide binding]; other site 272558009611 IHF - DNA interface [nucleotide binding]; other site 272558009612 RDD family; Region: RDD; cl00746 272558009613 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 272558009614 Predicted permease [General function prediction only]; Region: COG2056 272558009615 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 272558009616 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272558009617 Helix-turn-helix domains; Region: HTH; cl00088 272558009618 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 272558009619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558009620 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 272558009621 DNA binding residues [nucleotide binding] 272558009622 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 272558009623 substrate binding site; other site 272558009624 tetramer interface; other site 272558009625 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 272558009626 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 272558009627 NAD binding site [chemical binding]; other site 272558009628 substrate binding site [chemical binding]; other site 272558009629 homodimer interface [polypeptide binding]; other site 272558009630 active site 272558009631 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 272558009632 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 272558009633 NADP binding site [chemical binding]; other site 272558009634 active site 272558009635 putative substrate binding site [chemical binding]; other site 272558009636 Cupin domain; Region: Cupin_2; cl09118 272558009637 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 272558009638 active site 272558009639 Protein of unknown function (DUF563); Region: DUF563; cl15705 272558009640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 272558009641 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 272558009642 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 272558009643 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 272558009644 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272558009645 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 272558009646 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 272558009647 active site 272558009648 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272558009649 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558009650 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 272558009651 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272558009652 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272558009653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009654 NAD(P) binding site [chemical binding]; other site 272558009655 active site 272558009656 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558009657 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 272558009658 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 272558009659 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 272558009660 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 272558009661 transmembrane helices; other site 272558009662 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 272558009663 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 272558009664 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 272558009665 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 272558009666 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 272558009667 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 272558009668 ligand-binding site [chemical binding]; other site 272558009669 ATP-sulfurylase; Region: ATPS; cd00517 272558009670 active site 272558009671 HXXH motif; other site 272558009672 flexible loop; other site 272558009673 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 272558009674 DNA topoisomerase III; Provisional; Region: PRK07726 272558009675 active site 272558009676 putative interdomain interaction site [polypeptide binding]; other site 272558009677 putative metal-binding site [ion binding]; other site 272558009678 putative nucleotide binding site [chemical binding]; other site 272558009679 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 272558009680 domain I; other site 272558009681 DNA binding groove [nucleotide binding] 272558009682 phosphate binding site [ion binding]; other site 272558009683 domain II; other site 272558009684 domain III; other site 272558009685 nucleotide binding site [chemical binding]; other site 272558009686 catalytic site [active] 272558009687 domain IV; other site 272558009688 DNA topoisomerase III; Validated; Region: PRK08173 272558009689 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 272558009690 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 272558009691 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272558009692 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558009693 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 272558009694 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 272558009695 DctM-like transporters; Region: DctM; pfam06808 272558009696 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 272558009697 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 272558009698 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 272558009699 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 272558009700 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 272558009701 Helix-turn-helix domains; Region: HTH; cl00088 272558009702 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 272558009703 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; cl00025 272558009704 DAK2 domain; Region: Dak2; cl03685 272558009705 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 272558009706 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 272558009707 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; cl15691 272558009708 active site 272558009709 ATP binding site [chemical binding]; other site 272558009710 substrate binding site [chemical binding]; other site 272558009711 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 272558009712 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; cl08294 272558009713 interface (dimer of trimers) [polypeptide binding]; other site 272558009714 Substrate-binding/catalytic site; other site 272558009715 Zn-binding sites [ion binding]; other site 272558009716 Divergent PAP2 family; Region: DUF212; cl00855 272558009717 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 272558009718 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272558009719 cobalamin binding residues [chemical binding]; other site 272558009720 putative BtuC binding residues; other site 272558009721 dimer interface [polypeptide binding]; other site 272558009722 3D domain; Region: 3D; cl01439 272558009723 Putative membrane protein; Region: YuiB; pfam14068 272558009724 chaperone protein DnaJ; Provisional; Region: PRK14293 272558009725 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272558009726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009727 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 272558009728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009729 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 272558009730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558009731 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558009732 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 272558009733 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 272558009734 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 272558009735 FeS/SAM binding site; other site 272558009736 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 272558009737 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272558009738 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272558009739 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 272558009740 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558009741 Helix-turn-helix domains; Region: HTH; cl00088 272558009742 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 272558009743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009744 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 272558009745 putative transposase OrfB; Reviewed; Region: PHA02517 272558009746 HTH-like domain; Region: HTH_21; pfam13276 272558009747 Integrase core domain; Region: rve; cl01316 272558009748 Integrase core domain; Region: rve_3; cl15866 272558009749 Helix-turn-helix domains; Region: HTH; cl00088 272558009750 NifU-like domain; Region: NifU; cl00484 272558009751 homoserine kinase; Provisional; Region: PRK01212 272558009752 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 272558009753 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 272558009754 threonine synthase; Reviewed; Region: PRK06721 272558009755 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 272558009756 homodimer interface [polypeptide binding]; other site 272558009757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558009758 catalytic residue [active] 272558009759 homoserine dehydrogenase; Provisional; Region: PRK06349 272558009760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558009761 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 272558009762 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 272558009763 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; cl15691 272558009764 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 272558009765 tetramer interfaces [polypeptide binding]; other site 272558009766 binuclear metal-binding site [ion binding]; other site 272558009767 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 272558009768 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 272558009769 dimer interface [polypeptide binding]; other site 272558009770 phosphorylation site [posttranslational modification] 272558009771 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 272558009772 ATP binding site [chemical binding]; other site 272558009773 Mg2+ binding site [ion binding]; other site 272558009774 G-X-G motif; other site 272558009775 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558009776 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 272558009777 active site 272558009778 phosphorylation site [posttranslational modification] 272558009779 intermolecular recognition site; other site 272558009780 dimerization interface [polypeptide binding]; other site 272558009781 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 272558009782 DNA binding site [nucleotide binding] 272558009783 Predicted membrane protein [Function unknown]; Region: COG2311 272558009784 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558009785 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 272558009786 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 272558009787 active site 272558009788 motif I; other site 272558009789 motif II; other site 272558009790 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 272558009791 Predicted transcriptional regulator [Transcription]; Region: COG2345 272558009792 Helix-turn-helix domains; Region: HTH; cl00088 272558009793 Protein of unknown function DUF86; Region: DUF86; cl01031 272558009794 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 272558009795 putative active site [active] 272558009796 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 272558009797 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 272558009798 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 272558009799 lipoyl synthase; Provisional; Region: PRK05481 272558009800 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 272558009801 FeS/SAM binding site; other site 272558009802 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558009803 Transposase domain (DUF772); Region: DUF772; cl12084 272558009804 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 272558009805 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 272558009806 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 272558009807 TM-ABC transporter signature motif; other site 272558009808 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 272558009809 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 272558009810 Walker A/P-loop; other site 272558009811 ATP binding site [chemical binding]; other site 272558009812 Q-loop/lid; other site 272558009813 ABC transporter signature motif; other site 272558009814 Walker B; other site 272558009815 D-loop; other site 272558009816 H-loop/switch region; other site 272558009817 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 272558009818 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272558009819 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 272558009820 putative ligand binding site [chemical binding]; other site 272558009821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558009822 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558009823 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558009824 putative transposase OrfB; Reviewed; Region: PHA02517 272558009825 HTH-like domain; Region: HTH_21; pfam13276 272558009826 Integrase core domain; Region: rve; cl01316 272558009827 Integrase core domain; Region: rve_3; cl15866 272558009828 Helix-turn-helix domains; Region: HTH; cl00088 272558009829 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 272558009830 active site 272558009831 phosphorylation site [posttranslational modification] 272558009832 intermolecular recognition site; other site 272558009833 dimerization interface [polypeptide binding]; other site 272558009834 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558009835 Cache domain; Region: Cache_1; pfam02743 272558009836 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 272558009837 dimerization interface [polypeptide binding]; other site 272558009838 Histidine kinase; Region: His_kinase; pfam06580 272558009839 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 272558009840 ATP binding site [chemical binding]; other site 272558009841 Mg2+ binding site [ion binding]; other site 272558009842 G-X-G motif; other site 272558009843 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 272558009844 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 272558009845 ligand binding site [chemical binding]; other site 272558009846 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 272558009847 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 272558009848 folate binding site [chemical binding]; other site 272558009849 NADP+ binding site [chemical binding]; other site 272558009850 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 272558009851 dimerization interface [polypeptide binding]; other site 272558009852 active site 272558009853 Domain of unknown function (DUF1805); Region: DUF1805; cl01339 272558009854 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 272558009855 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 272558009856 active site 272558009857 metal binding site [ion binding]; metal-binding site 272558009858 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 272558009859 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 272558009860 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 272558009861 Protein of unknown function DUF72; Region: DUF72; cl00777 272558009862 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272558009863 DNA binding residues [nucleotide binding] 272558009864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558009865 MULE transposase domain; Region: MULE; pfam10551 272558009866 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558009867 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558009868 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 272558009869 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558009870 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272558009871 FeS assembly protein SufB; Region: sufB; TIGR01980 272558009872 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 272558009873 trimerization site [polypeptide binding]; other site 272558009874 active site 272558009875 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 272558009876 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558009877 catalytic residue [active] 272558009878 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 272558009879 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272558009880 FeS assembly ATPase SufC; Region: sufC; TIGR01978 272558009881 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 272558009882 Walker A/P-loop; other site 272558009883 ATP binding site [chemical binding]; other site 272558009884 Q-loop/lid; other site 272558009885 ABC transporter signature motif; other site 272558009886 Walker B; other site 272558009887 D-loop; other site 272558009888 H-loop/switch region; other site 272558009889 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 272558009890 Accessory gene regulator B; Region: AgrB; cl01873 272558009891 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 272558009892 dimer interface [polypeptide binding]; other site 272558009893 phosphorylation site [posttranslational modification] 272558009894 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 272558009895 ATP binding site [chemical binding]; other site 272558009896 Mg2+ binding site [ion binding]; other site 272558009897 G-X-G motif; other site 272558009898 Transposase IS200 like; Region: Y1_Tnp; cl00848 272558009899 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272558009900 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 272558009901 ABC-ATPase subunit interface; other site 272558009902 putative PBP binding loops; other site 272558009903 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 272558009904 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 272558009905 Walker A/P-loop; other site 272558009906 ATP binding site [chemical binding]; other site 272558009907 Q-loop/lid; other site 272558009908 ABC transporter signature motif; other site 272558009909 Walker B; other site 272558009910 D-loop; other site 272558009911 H-loop/switch region; other site 272558009912 NIL domain; Region: NIL; cl09633 272558009913 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 272558009914 putative substrate translocation pore; other site 272558009915 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272558009916 Protein of unknown function (DUF2553); Region: DUF2553; pfam10830 272558009917 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 272558009918 lipoyl attachment site [posttranslational modification]; other site 272558009919 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 272558009920 ArsC family; Region: ArsC; pfam03960 272558009921 putative ArsC-like catalytic residues; other site 272558009922 putative TRX-like catalytic residues [active] 272558009923 Very long chain acyl-CoA dehydrogenase; Region: VLCAD; cd01161 272558009924 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272558009925 FAD binding site [chemical binding]; other site 272558009926 substrate binding pocket [chemical binding]; other site 272558009927 catalytic base [active] 272558009928 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 272558009929 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 272558009930 dimer interface [polypeptide binding]; other site 272558009931 active site 272558009932 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 272558009933 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 272558009934 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272558009935 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272558009936 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 272558009937 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 272558009938 substrate binding site [chemical binding]; other site 272558009939 oxyanion hole (OAH) forming residues; other site 272558009940 Coat F domain; Region: Coat_F; cl15836 272558009941 Protein of unknown function (DUF2573); Region: DUF2573; pfam10835 272558009942 Predicted transcriptional regulators [Transcription]; Region: COG1725 272558009943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558009944 DNA-binding site [nucleotide binding]; DNA binding site 272558009945 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558009946 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 272558009947 Walker A/P-loop; other site 272558009948 ATP binding site [chemical binding]; other site 272558009949 Q-loop/lid; other site 272558009950 ABC transporter signature motif; other site 272558009951 Walker B; other site 272558009952 D-loop; other site 272558009953 H-loop/switch region; other site 272558009954 LysE type translocator; Region: LysE; cl00565 272558009955 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 272558009956 DNA binding residues [nucleotide binding] 272558009957 drug binding residues [chemical binding]; other site 272558009958 dimer interface [polypeptide binding]; other site 272558009959 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558009960 Putative zinc-finger; Region: zf-HC2; cl15806 272558009961 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 272558009962 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 272558009963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558009964 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558009965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 272558009966 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 272558009967 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272558009968 Integrase core domain; Region: rve; cl01316 272558009969 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272558009970 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558009971 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 272558009972 Walker A/P-loop; other site 272558009973 ATP binding site [chemical binding]; other site 272558009974 Q-loop/lid; other site 272558009975 ABC transporter signature motif; other site 272558009976 Walker B; other site 272558009977 D-loop; other site 272558009978 H-loop/switch region; other site 272558009979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558009980 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558009981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558009982 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558009983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558009984 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558009985 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 272558009986 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 272558009987 cofactor binding site; other site 272558009988 DNA binding site [nucleotide binding] 272558009989 substrate interaction site [chemical binding]; other site 272558009990 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 272558009991 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 272558009992 active site 272558009993 metal binding site [ion binding]; metal-binding site 272558009994 Sporulation related domain; Region: SPOR; cl10051 272558009995 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 272558009996 active site 272558009997 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 272558009998 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 272558009999 Phage-related protein [Function unknown]; Region: COG4722; cl15832 272558010000 Phage tail protein; Region: Sipho_tail; pfam05709 272558010001 Mu-like prophage protein [General function prediction only]; Region: COG3941 272558010002 Phage-related protein [Function unknown]; Region: COG5412 272558010003 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 272558010004 Phage major tail protein 2; Region: Phage_tail_2; cl11463 272558010005 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 272558010006 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 272558010007 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 272558010008 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 272558010009 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 272558010010 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cd00233 272558010011 active site 272558010012 conformational flexibility of ligand binding pocket; other site 272558010013 ADP-ribosylating toxin turn-turn motif; other site 272558010014 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 272558010015 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 272558010016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 272558010017 Terminase-like family; Region: Terminase_6; pfam03237 272558010018 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 272558010019 Helix-turn-helix domains; Region: HTH; cl00088 272558010020 ParB-like nuclease domain; Region: ParBc; cl02129 272558010021 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 272558010022 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 272558010023 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 272558010024 Recombination protein U; Region: RecU; cl01314 272558010025 hypothetical protein; Provisional; Region: PRK06921 272558010026 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 272558010027 Walker A motif; other site 272558010028 ATP binding site [chemical binding]; other site 272558010029 Walker B motif; other site 272558010030 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 272558010031 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 272558010032 RecT family; Region: RecT; cl04285 272558010033 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 272558010034 Domain of unknown function (DUF771); Region: DUF771; cl09962 272558010035 Helix-turn-helix domains; Region: HTH; cl00088 272558010036 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 272558010037 non-specific DNA binding site [nucleotide binding]; other site 272558010038 salt bridge; other site 272558010039 sequence-specific DNA binding site [nucleotide binding]; other site 272558010040 Domain of unknown function (DUF955); Region: DUF955; cl01076 272558010041 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 272558010042 Phage integrase family; Region: Phage_integrase; pfam00589 272558010043 Int/Topo IB signature motif; other site 272558010044 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 272558010045 SmpB-tmRNA interface; other site 272558010046 ribonuclease R; Region: RNase_R; TIGR02063 272558010047 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 272558010048 RNB domain; Region: RNB; pfam00773 272558010049 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 272558010050 RNA binding site [nucleotide binding]; other site 272558010051 Esterase/lipase [General function prediction only]; Region: COG1647 272558010052 enolase; Provisional; Region: eno; PRK00077 272558010053 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 272558010054 dimer interface [polypeptide binding]; other site 272558010055 metal binding site [ion binding]; metal-binding site 272558010056 substrate binding pocket [chemical binding]; other site 272558010057 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 272558010058 Sulfatase; Region: Sulfatase; cl10460 272558010059 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 272558010060 substrate binding site [chemical binding]; other site 272558010061 dimer interface [polypeptide binding]; other site 272558010062 catalytic triad [active] 272558010063 Phosphoglycerate kinase; Region: PGK; pfam00162 272558010064 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 272558010065 substrate binding site [chemical binding]; other site 272558010066 hinge regions; other site 272558010067 ADP binding site [chemical binding]; other site 272558010068 catalytic site [active] 272558010069 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 272558010070 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272558010071 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272558010072 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 272558010073 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 272558010074 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272558010075 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 272558010076 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272558010077 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272558010078 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272558010079 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272558010080 oligomer interface [polypeptide binding]; other site 272558010081 active site residues [active] 272558010082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558010083 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558010084 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 272558010085 dimerization domain swap beta strand [polypeptide binding]; other site 272558010086 regulatory protein interface [polypeptide binding]; other site 272558010087 active site 272558010088 regulatory phosphorylation site [posttranslational modification]; other site 272558010089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 272558010090 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 272558010091 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 272558010092 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 272558010093 phosphate binding site [ion binding]; other site 272558010094 dimer interface [polypeptide binding]; other site 272558010095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558010096 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 272558010097 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 272558010098 putative active site [active] 272558010099 nucleotide binding site [chemical binding]; other site 272558010100 nudix motif; other site 272558010101 putative metal binding site [ion binding]; other site 272558010102 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272558010103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010105 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 272558010106 binding surface 272558010107 TPR motif; other site 272558010108 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 272558010109 binding surface 272558010110 TPR motif; other site 272558010111 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 272558010112 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 272558010113 binding surface 272558010114 TPR motif; other site 272558010115 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 272558010116 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 272558010117 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 272558010118 active site turn [active] 272558010119 phosphorylation site [posttranslational modification] 272558010120 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558010121 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 272558010122 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 272558010123 putative active site [active] 272558010124 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 272558010125 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 272558010126 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 272558010127 putative active site [active] 272558010128 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 272558010129 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 272558010130 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272558010131 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 272558010132 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 272558010133 substrate binding site [chemical binding]; other site 272558010134 glutamase interaction surface [polypeptide binding]; other site 272558010135 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 272558010136 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 272558010137 catalytic residues [active] 272558010138 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 272558010139 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 272558010140 putative active site [active] 272558010141 oxyanion strand; other site 272558010142 catalytic triad [active] 272558010143 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 272558010144 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 272558010145 putative active site pocket [active] 272558010146 4-fold oligomerization interface [polypeptide binding]; other site 272558010147 metal binding residues [ion binding]; metal-binding site 272558010148 3-fold/trimer interface [polypeptide binding]; other site 272558010149 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 272558010150 histidinol dehydrogenase; Region: hisD; TIGR00069 272558010151 NAD binding site [chemical binding]; other site 272558010152 dimerization interface [polypeptide binding]; other site 272558010153 product binding site; other site 272558010154 substrate binding site [chemical binding]; other site 272558010155 zinc binding site [ion binding]; other site 272558010156 catalytic residues [active] 272558010157 ATP phosphoribosyltransferase; Region: HisG; cl15266 272558010158 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 272558010159 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 272558010160 dimer interface [polypeptide binding]; other site 272558010161 motif 1; other site 272558010162 active site 272558010163 motif 2; other site 272558010164 motif 3; other site 272558010165 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558010166 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 272558010167 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 272558010168 trimer interface [polypeptide binding]; other site 272558010169 active site 272558010170 substrate binding site [chemical binding]; other site 272558010171 CoA binding site [chemical binding]; other site 272558010172 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 272558010173 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 272558010174 motif II; other site 272558010175 Nucleoside recognition; Region: Gate; cl00486 272558010176 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 272558010177 HPr kinase/phosphorylase; Provisional; Region: PRK05428 272558010178 DRTGG domain; Region: DRTGG; cl12147 272558010179 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 272558010180 Hpr binding site; other site 272558010181 active site 272558010182 homohexamer subunit interaction site [polypeptide binding]; other site 272558010183 Membrane protein of unknown function; Region: DUF360; cl00850 272558010184 PspC domain; Region: PspC; cl00864 272558010185 Uncharacterized conserved protein [Function unknown]; Region: COG3595 272558010186 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 272558010187 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 272558010188 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 272558010189 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 272558010190 excinuclease ABC subunit B; Provisional; Region: PRK05298 272558010191 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 272558010192 ATP binding site [chemical binding]; other site 272558010193 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 272558010194 nucleotide binding region [chemical binding]; other site 272558010195 ATP-binding site [chemical binding]; other site 272558010196 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272558010197 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 272558010198 active site 272558010199 catalytic site [active] 272558010200 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 272558010201 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 272558010202 protein binding site [polypeptide binding]; other site 272558010203 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272558010204 C-terminal peptidase (prc); Region: prc; TIGR00225 272558010205 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 272558010206 protein binding site [polypeptide binding]; other site 272558010207 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272558010208 Catalytic dyad [active] 272558010209 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 272558010211 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558010212 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 272558010213 FtsX-like permease family; Region: FtsX; cl15850 272558010214 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 272558010215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558010216 Walker A/P-loop; other site 272558010217 ATP binding site [chemical binding]; other site 272558010218 Q-loop/lid; other site 272558010219 ABC transporter signature motif; other site 272558010220 Walker B; other site 272558010221 D-loop; other site 272558010222 H-loop/switch region; other site 272558010223 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 272558010224 Cytochrome c; Region: Cytochrom_C; cl11414 272558010225 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272558010226 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558010227 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272558010228 RF-1 domain; Region: RF-1; cl02875 272558010229 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 272558010230 RF-1 domain; Region: RF-1; cl02875 272558010231 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 272558010232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558010233 ATP binding site [chemical binding]; other site 272558010234 putative Mg++ binding site [ion binding]; other site 272558010235 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272558010236 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 272558010237 nucleotide binding region [chemical binding]; other site 272558010238 ATP-binding site [chemical binding]; other site 272558010239 SEC-C motif; Region: SEC-C; pfam02810 272558010240 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 272558010241 30S subunit binding site; other site 272558010242 Transposase domain (DUF772); Region: DUF772; cl15789 272558010243 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 272558010244 DNA-binding site [nucleotide binding]; DNA binding site 272558010245 RNA-binding motif; other site 272558010246 Flagellar protein FliT; Region: FliT; cl05125 272558010247 Flagellar protein FliS; Region: FliS; cl00654 272558010248 flagellar capping protein; Validated; Region: fliD; PRK07737 272558010249 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 272558010250 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 272558010251 FlaG protein; Region: FlaG; cl00591 272558010252 flagellin; Provisional; Region: PRK12804 272558010253 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272558010254 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 272558010255 Global regulator protein family; Region: CsrA; cl00670 272558010256 FliW protein; Region: FliW; cl00740 272558010257 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 272558010258 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 272558010259 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 272558010260 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272558010261 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272558010262 FlgN protein; Region: FlgN; cl09176 272558010263 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 272558010264 flagellar operon protein TIGR03826; Region: YvyF 272558010265 comF family protein; Region: comF; TIGR00201 272558010266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 272558010267 active site 272558010268 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 272558010269 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 272558010270 ATP binding site [chemical binding]; other site 272558010271 putative Mg++ binding site [ion binding]; other site 272558010272 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 272558010273 nucleotide binding region [chemical binding]; other site 272558010274 ATP-binding site [chemical binding]; other site 272558010275 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 272558010276 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 272558010277 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 272558010278 active site 272558010279 phosphorylation site [posttranslational modification] 272558010280 intermolecular recognition site; other site 272558010281 dimerization interface [polypeptide binding]; other site 272558010282 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 272558010283 DNA binding residues [nucleotide binding] 272558010284 dimerization interface [polypeptide binding]; other site 272558010285 Sensor protein DegS; Region: DegS; pfam05384 272558010286 Histidine kinase; Region: HisKA_3; pfam07730 272558010287 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 272558010288 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 272558010289 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 272558010290 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 272558010291 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 272558010292 putative substrate binding pocket [chemical binding]; other site 272558010293 AC domain interface; other site 272558010294 catalytic triad [active] 272558010295 AB domain interface; other site 272558010296 interchain disulfide; other site 272558010297 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272558010298 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558010299 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 272558010300 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 272558010301 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558010302 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 272558010303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010305 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 272558010306 Transposase domain (DUF772); Region: DUF772; cl12084 272558010307 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558010308 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 272558010309 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558010310 peptide binding site [polypeptide binding]; other site 272558010311 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272558010312 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 272558010313 dimer interface [polypeptide binding]; other site 272558010314 conserved gate region; other site 272558010315 putative PBP binding loops; other site 272558010316 ABC-ATPase subunit interface; other site 272558010317 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272558010318 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 272558010319 dimer interface [polypeptide binding]; other site 272558010320 conserved gate region; other site 272558010321 putative PBP binding loops; other site 272558010322 ABC-ATPase subunit interface; other site 272558010323 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 272558010324 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 272558010325 Walker A/P-loop; other site 272558010326 ATP binding site [chemical binding]; other site 272558010327 Q-loop/lid; other site 272558010328 ABC transporter signature motif; other site 272558010329 Walker B; other site 272558010330 D-loop; other site 272558010331 H-loop/switch region; other site 272558010332 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558010333 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272558010334 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 272558010335 Walker A/P-loop; other site 272558010336 ATP binding site [chemical binding]; other site 272558010337 Q-loop/lid; other site 272558010338 ABC transporter signature motif; other site 272558010339 Walker B; other site 272558010340 D-loop; other site 272558010341 H-loop/switch region; other site 272558010342 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558010343 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272558010344 Helix-turn-helix domains; Region: HTH; cl00088 272558010345 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 272558010346 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 272558010347 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 272558010348 dimer interface [polypeptide binding]; other site 272558010349 conserved gate region; other site 272558010350 ABC-ATPase subunit interface; other site 272558010351 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272558010352 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 272558010353 dimer interface [polypeptide binding]; other site 272558010354 conserved gate region; other site 272558010355 putative PBP binding loops; other site 272558010356 ABC-ATPase subunit interface; other site 272558010357 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 272558010358 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272558010359 peptide binding site [polypeptide binding]; other site 272558010360 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 272558010361 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 272558010362 Walker A/P-loop; other site 272558010363 ATP binding site [chemical binding]; other site 272558010364 Q-loop/lid; other site 272558010365 ABC transporter signature motif; other site 272558010366 Walker B; other site 272558010367 D-loop; other site 272558010368 H-loop/switch region; other site 272558010369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558010370 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272558010371 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 272558010372 Walker A/P-loop; other site 272558010373 ATP binding site [chemical binding]; other site 272558010374 Q-loop/lid; other site 272558010375 ABC transporter signature motif; other site 272558010376 Walker B; other site 272558010377 D-loop; other site 272558010378 H-loop/switch region; other site 272558010379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272558010380 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 272558010381 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010382 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010383 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010384 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272558010385 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010386 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010387 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010388 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010389 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010390 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010391 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 272558010392 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 272558010393 Stage II sporulation protein; Region: SpoIID; pfam08486 272558010394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010395 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 272558010396 NAD(P) binding site [chemical binding]; other site 272558010397 active site 272558010398 Bacterial sugar transferase; Region: Bac_transf; cl00939 272558010399 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 272558010400 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 272558010401 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272558010402 active site 272558010403 tetramer interface; other site 272558010404 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 272558010405 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558010406 Acylphosphatase; Region: Acylphosphatase; cl00551 272558010407 cyanophycin synthetase; Provisional; Region: PRK14016 272558010408 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558010409 Acylphosphatase; Region: Acylphosphatase; cl00551 272558010410 cyanophycin synthetase; Provisional; Region: PRK14016 272558010411 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272558010412 Acylphosphatase; Region: Acylphosphatase; cl00551 272558010413 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 272558010414 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272558010415 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 272558010416 active site 272558010417 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 272558010418 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 272558010419 active site 272558010420 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; cd01635 272558010421 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 272558010422 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 272558010423 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 272558010424 Walker A/P-loop; other site 272558010425 ATP binding site [chemical binding]; other site 272558010426 Q-loop/lid; other site 272558010427 ABC transporter signature motif; other site 272558010428 Walker B; other site 272558010429 D-loop; other site 272558010430 H-loop/switch region; other site 272558010431 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 272558010432 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 272558010433 Walker A/P-loop; other site 272558010434 ATP binding site [chemical binding]; other site 272558010435 Q-loop/lid; other site 272558010436 ABC transporter signature motif; other site 272558010437 Walker B; other site 272558010438 D-loop; other site 272558010439 H-loop/switch region; other site 272558010440 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558010441 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272558010442 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 272558010443 active site 272558010444 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 272558010445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558010446 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 272558010447 putative ADP-binding pocket [chemical binding]; other site 272558010448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 272558010449 MULE transposase domain; Region: MULE; pfam10551 272558010450 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010451 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010452 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010453 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010454 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010455 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 272558010456 active site 272558010457 metal binding site [ion binding]; metal-binding site 272558010458 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 272558010459 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 272558010460 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 272558010461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558010462 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 272558010463 Chain length determinant protein; Region: Wzz; cl15801 272558010464 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 272558010465 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 272558010466 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010467 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010468 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 272558010469 NlpC/P60 family; Region: NLPC_P60; cl11438 272558010470 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 272558010471 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558010472 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 272558010473 Walker A/P-loop; other site 272558010474 ATP binding site [chemical binding]; other site 272558010475 Q-loop/lid; other site 272558010476 ABC transporter signature motif; other site 272558010477 Walker B; other site 272558010478 D-loop; other site 272558010479 H-loop/switch region; other site 272558010480 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272558010481 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 272558010482 FtsX-like permease family; Region: FtsX; pfam02687 272558010483 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE; Region: HTH_TioE_rpt2; cd04773 272558010484 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 272558010485 DNA binding residues [nucleotide binding] 272558010486 putative dimer interface [polypeptide binding]; other site 272558010487 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 272558010488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010489 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 272558010490 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 272558010491 Histidine kinase; Region: His_kinase; pfam06580 272558010492 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 272558010493 ATP binding site [chemical binding]; other site 272558010494 Mg2+ binding site [ion binding]; other site 272558010495 G-X-G motif; other site 272558010496 Response regulator receiver domain; Region: Response_reg; pfam00072 272558010497 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 272558010498 active site 272558010499 phosphorylation site [posttranslational modification] 272558010500 intermolecular recognition site; other site 272558010501 dimerization interface [polypeptide binding]; other site 272558010502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010503 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558010504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010505 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558010506 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 272558010507 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 272558010508 dimer interface [polypeptide binding]; other site 272558010509 conserved gate region; other site 272558010510 putative PBP binding loops; other site 272558010511 ABC-ATPase subunit interface; other site 272558010512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558010513 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 272558010514 dimer interface [polypeptide binding]; other site 272558010515 conserved gate region; other site 272558010516 putative PBP binding loops; other site 272558010517 ABC-ATPase subunit interface; other site 272558010518 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 272558010519 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 272558010520 inhibitor binding site; inhibition site 272558010521 active site 272558010522 Protein of unknown function, DUF624; Region: DUF624; cl02369 272558010523 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558010524 DinB superfamily; Region: DinB_2; pfam12867 272558010525 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 272558010526 ATP-binding site [chemical binding]; other site 272558010527 Gluconate-6-phosphate binding site [chemical binding]; other site 272558010528 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 272558010529 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558010530 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 272558010531 dimer interface [polypeptide binding]; other site 272558010532 conserved gate region; other site 272558010533 putative PBP binding loops; other site 272558010534 ABC-ATPase subunit interface; other site 272558010535 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 272558010536 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 272558010537 dimer interface [polypeptide binding]; other site 272558010538 putative PBP binding loops; other site 272558010539 ABC-ATPase subunit interface; other site 272558010540 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558010541 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 272558010542 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 272558010543 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 272558010544 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558010545 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558010546 DNA binding site [nucleotide binding] 272558010547 domain linker motif; other site 272558010548 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 272558010549 dimerization interface [polypeptide binding]; other site 272558010550 ligand binding site [chemical binding]; other site 272558010551 Predicted membrane protein [Function unknown]; Region: COG2311 272558010552 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558010553 Protein of unknown function (DUF418); Region: DUF418; cl12135 272558010554 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 272558010555 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 272558010556 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 272558010557 carbohydrate binding site [chemical binding]; other site 272558010558 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 272558010559 carbohydrate binding site [chemical binding]; other site 272558010560 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 272558010561 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 272558010562 Ca binding site [ion binding]; other site 272558010563 active site 272558010564 catalytic site [active] 272558010565 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 272558010566 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 272558010567 active site 272558010568 catalytic site [active] 272558010569 metal binding site [ion binding]; metal-binding site 272558010570 dimer interface [polypeptide binding]; other site 272558010571 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 272558010572 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 272558010573 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 272558010574 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 272558010575 Cupin domain; Region: Cupin_2; cl09118 272558010576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 272558010577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010578 Protein of unknown function, DUF600; Region: DUF600; cl04640 272558010579 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558010580 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558010581 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558010582 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 272558010583 VanZ like family; Region: VanZ; cl01971 272558010584 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 272558010585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010586 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 272558010587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010588 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272558010589 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 272558010590 putative NAD(P) binding site [chemical binding]; other site 272558010591 active site 272558010592 putative substrate binding site [chemical binding]; other site 272558010593 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 272558010594 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 272558010595 MatE; Region: MatE; cl10513 272558010596 MatE; Region: MatE; cl10513 272558010597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 272558010598 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 272558010599 putative ADP-binding pocket [chemical binding]; other site 272558010600 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 272558010601 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 272558010602 active site 272558010603 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 272558010604 active site 272558010605 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 272558010606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010607 NAD(P) binding site [chemical binding]; other site 272558010608 active site 272558010609 Bacterial sugar transferase; Region: Bac_transf; cl00939 272558010610 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 272558010611 active site 272558010612 tetramer interface; other site 272558010613 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 272558010614 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 272558010615 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 272558010616 NAD(P) binding site [chemical binding]; other site 272558010617 homodimer interface [polypeptide binding]; other site 272558010618 substrate binding site [chemical binding]; other site 272558010619 active site 272558010620 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 272558010621 PemK-like protein; Region: PemK; cl00995 272558010622 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 272558010623 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 272558010624 active site 272558010625 intersubunit interface [polypeptide binding]; other site 272558010626 catalytic residue [active] 272558010627 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272558010628 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 272558010629 substrate binding site [chemical binding]; other site 272558010630 ATP binding site [chemical binding]; other site 272558010631 Helix-turn-helix domains; Region: HTH; cl00088 272558010632 Transcriptional regulator [Transcription]; Region: IclR; COG1414 272558010633 Bacterial transcriptional regulator; Region: IclR; pfam01614 272558010634 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 272558010635 nudix motif; other site 272558010636 Transcriptional regulators [Transcription]; Region: PurR; COG1609 272558010637 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 272558010638 DNA binding site [nucleotide binding] 272558010639 domain linker motif; other site 272558010640 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 272558010641 dimerization interface [polypeptide binding]; other site 272558010642 ligand binding site [chemical binding]; other site 272558010643 sodium binding site [ion binding]; other site 272558010644 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 272558010645 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 272558010646 substrate binding site [chemical binding]; other site 272558010647 dimer interface [polypeptide binding]; other site 272558010648 ATP binding site [chemical binding]; other site 272558010649 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 272558010650 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 272558010651 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 272558010652 Walker A/P-loop; other site 272558010653 ATP binding site [chemical binding]; other site 272558010654 Q-loop/lid; other site 272558010655 ABC transporter signature motif; other site 272558010656 Walker B; other site 272558010657 D-loop; other site 272558010658 H-loop/switch region; other site 272558010659 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 272558010660 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 272558010661 TM-ABC transporter signature motif; other site 272558010662 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 272558010663 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 272558010664 ligand binding site [chemical binding]; other site 272558010665 dimerization interface [polypeptide binding]; other site 272558010666 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558010667 Helix-turn-helix domains; Region: HTH; cl00088 272558010668 WHG domain; Region: WHG; pfam13305 272558010669 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 272558010670 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 272558010671 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 272558010672 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 272558010673 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 272558010674 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 272558010675 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272558010676 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 272558010677 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 272558010678 rod shape-determining protein Mbl; Provisional; Region: PRK13928 272558010679 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 272558010680 ATP binding site [chemical binding]; other site 272558010681 profilin binding site; other site 272558010682 Helix-turn-helix domains; Region: HTH; cl00088 272558010683 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272558010684 active site 272558010685 substrate binding site [chemical binding]; other site 272558010686 catalytic site [active] 272558010687 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 272558010688 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 272558010689 ligand binding site [chemical binding]; other site 272558010690 flexible hinge region; other site 272558010691 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 272558010692 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 272558010693 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272558010694 metal binding triad; other site 272558010695 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 272558010696 Sodium:solute symporter family; Region: SSF; cl00456 272558010697 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 272558010698 Peptidase family M23; Region: Peptidase_M23; pfam01551 272558010699 stage II sporulation protein D; Region: spore_II_D; TIGR02870 272558010700 Stage II sporulation protein; Region: SpoIID; pfam08486 272558010701 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 272558010702 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 272558010703 hinge; other site 272558010704 active site 272558010705 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 272558010706 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 272558010707 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 272558010708 Transposase; Region: DDE_Tnp_ISL3; pfam01610 272558010709 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 272558010710 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 272558010711 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 272558010712 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 272558010713 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272558010714 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 272558010715 alpha subunit interaction interface [polypeptide binding]; other site 272558010716 Walker A motif; other site 272558010717 ATP binding site [chemical binding]; other site 272558010718 Walker B motif; other site 272558010719 inhibitor binding site; inhibition site 272558010720 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272558010721 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 272558010722 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 272558010723 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 272558010724 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272558010725 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 272558010726 beta subunit interaction interface [polypeptide binding]; other site 272558010727 Walker A motif; other site 272558010728 ATP binding site [chemical binding]; other site 272558010729 Walker B motif; other site 272558010730 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272558010731 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 272558010732 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 272558010733 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 272558010734 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 272558010735 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272558010736 ATP synthase A chain; Region: ATP-synt_A; cl00413 272558010737 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 272558010738 putative active site [active] 272558010739 catalytic triad [active] 272558010740 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 272558010741 PA/protease domain interface [polypeptide binding]; other site 272558010742 putative integrin binding motif; other site 272558010743 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 272558010744 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 272558010745 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 272558010746 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 272558010747 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 272558010748 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 272558010749 dimer interface [polypeptide binding]; other site 272558010750 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272558010751 active site 272558010752 folate binding site [chemical binding]; other site 272558010753 Protein of unknown function (DUF436); Region: DUF436; cl01860 272558010754 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 272558010755 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 272558010756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 272558010757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558010758 dimer interface [polypeptide binding]; other site 272558010759 putative CheW interface [polypeptide binding]; other site 272558010760 Low molecular weight phosphatase family; Region: LMWPc; cd00115 272558010761 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 272558010762 active site 272558010763 Predicted membrane protein [Function unknown]; Region: COG1971 272558010764 Domain of unknown function DUF; Region: DUF204; pfam02659 272558010765 Domain of unknown function DUF; Region: DUF204; pfam02659 272558010766 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 272558010767 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 272558010768 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558010769 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 272558010770 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 272558010771 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 272558010772 S-adenosylmethionine binding site [chemical binding]; other site 272558010773 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272558010774 RF-1 domain; Region: RF-1; cl02875 272558010775 RF-1 domain; Region: RF-1; cl02875 272558010776 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 272558010777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010778 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272558010779 Isochorismatase family; Region: Isochorismatase; pfam00857 272558010780 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 272558010781 catalytic triad [active] 272558010782 conserved cis-peptide bond; other site 272558010783 Thymidine kinase; Region: TK; cl00631 272558010784 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 272558010785 transcription termination factor Rho; Provisional; Region: rho; PRK09376 272558010786 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 272558010787 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 272558010788 RNA binding site [nucleotide binding]; other site 272558010789 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 272558010790 multimer interface [polypeptide binding]; other site 272558010791 Walker A motif; other site 272558010792 ATP binding site [chemical binding]; other site 272558010793 Walker B motif; other site 272558010794 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 272558010795 putative active site [active] 272558010796 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 272558010797 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 272558010798 hinge; other site 272558010799 active site 272558010800 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 272558010801 active site 272558010802 intersubunit interactions; other site 272558010803 catalytic residue [active] 272558010804 hypothetical protein; Provisional; Region: PRK08185 272558010805 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 272558010806 intersubunit interface [polypeptide binding]; other site 272558010807 active site 272558010808 zinc binding site [ion binding]; other site 272558010809 Na+ binding site [ion binding]; other site 272558010810 Response regulator receiver domain; Region: Response_reg; pfam00072 272558010811 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 272558010812 active site 272558010813 phosphorylation site [posttranslational modification] 272558010814 intermolecular recognition site; other site 272558010815 dimerization interface [polypeptide binding]; other site 272558010816 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 272558010817 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 272558010818 ABC-ATPase subunit interface; other site 272558010819 dimer interface [polypeptide binding]; other site 272558010820 putative PBP binding regions; other site 272558010821 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 272558010822 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 272558010823 ABC-ATPase subunit interface; other site 272558010824 dimer interface [polypeptide binding]; other site 272558010825 putative PBP binding regions; other site 272558010826 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 272558010827 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 272558010828 siderophore binding site; other site 272558010829 CTP synthetase; Validated; Region: pyrG; PRK05380 272558010830 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 272558010831 Catalytic site [active] 272558010832 active site 272558010833 UTP binding site [chemical binding]; other site 272558010834 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272558010835 active site 272558010836 putative oxyanion hole; other site 272558010837 catalytic triad [active] 272558010838 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 272558010839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558010840 Zn2+ binding site [ion binding]; other site 272558010841 Mg2+ binding site [ion binding]; other site 272558010842 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 272558010843 B12 binding site [chemical binding]; other site 272558010844 cobalt ligand [ion binding]; other site 272558010845 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 272558010846 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 272558010847 Walker A; other site 272558010848 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 272558010849 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 272558010850 putative active site [active] 272558010851 putative substrate binding site [chemical binding]; other site 272558010852 putative coenzyme B12 binding site [chemical binding]; other site 272558010853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 272558010854 Helix-turn-helix domains; Region: HTH; cl00088 272558010855 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272558010856 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 272558010857 FAD binding site [chemical binding]; other site 272558010858 homotetramer interface [polypeptide binding]; other site 272558010859 substrate binding pocket [chemical binding]; other site 272558010860 catalytic base [active] 272558010861 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 272558010862 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 272558010863 FAD binding site [chemical binding]; other site 272558010864 homotetramer interface [polypeptide binding]; other site 272558010865 substrate binding pocket [chemical binding]; other site 272558010866 catalytic base [active] 272558010867 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 272558010868 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 272558010869 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 272558010870 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 272558010871 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 272558010872 dimer interface [polypeptide binding]; other site 272558010873 active site 272558010874 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 272558010875 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 272558010876 Cysteine-rich domain; Region: CCG; pfam02754 272558010877 Cysteine-rich domain; Region: CCG; pfam02754 272558010878 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 272558010879 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 272558010880 putative active site [active] 272558010881 catalytic site [active] 272558010882 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 272558010883 putative active site [active] 272558010884 catalytic site [active] 272558010885 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558010886 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 272558010887 Protein of unknown function (DUF456); Region: DUF456; cl01069 272558010888 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 272558010889 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272558010890 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272558010891 active site 272558010892 HIGH motif; other site 272558010893 KMSK motif region; other site 272558010894 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 272558010895 tRNA binding surface [nucleotide binding]; other site 272558010896 anticodon binding site; other site 272558010897 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 272558010898 Arginase family; Region: Arginase; cl00306 272558010899 spermidine synthase; Provisional; Region: PRK00811 272558010900 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 272558010901 Transglycosylase; Region: Transgly; cl07896 272558010902 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272558010903 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272558010904 YwhD family; Region: YwhD; pfam08741 272558010905 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 272558010906 active site 1 [active] 272558010907 dimer interface [polypeptide binding]; other site 272558010908 hexamer interface [polypeptide binding]; other site 272558010909 active site 2 [active] 272558010910 Helix-turn-helix domains; Region: HTH; cl00088 272558010911 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 272558010912 Uncharacterized conserved protein [Function unknown]; Region: COG3465 272558010913 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 272558010914 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 272558010915 Zn2+ binding site [ion binding]; other site 272558010916 Mg2+ binding site [ion binding]; other site 272558010917 Pectate lyase; Region: Pec_lyase_C; cl01593 272558010918 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272558010919 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 272558010920 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272558010921 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 272558010922 enoyl-CoA hydratase; Provisional; Region: PRK06688 272558010923 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 272558010924 substrate binding site [chemical binding]; other site 272558010925 oxyanion hole (OAH) forming residues; other site 272558010926 trimer interface [polypeptide binding]; other site 272558010927 Chlorite dismutase; Region: Chlor_dismutase; cl01280 272558010928 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 272558010929 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; cl09881 272558010930 Protein of unknown function (DUF423); Region: DUF423; cl01008 272558010931 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 272558010932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 272558010933 Coenzyme A binding pocket [chemical binding]; other site 272558010934 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 272558010935 putative active site [active] 272558010936 Zn binding site [ion binding]; other site 272558010937 hypothetical protein; Provisional; Region: PRK07740 272558010938 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272558010939 active site 272558010940 substrate binding site [chemical binding]; other site 272558010941 catalytic site [active] 272558010942 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 272558010943 metal binding triad; other site 272558010944 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 272558010945 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 272558010946 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 272558010947 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 272558010948 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 272558010949 Putative ammonia monooxygenase; Region: AmoA; pfam05145 272558010950 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 272558010951 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 272558010952 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 272558010953 active site 272558010954 phosphorylation site [posttranslational modification] 272558010955 intermolecular recognition site; other site 272558010956 dimerization interface [polypeptide binding]; other site 272558010957 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 272558010958 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 272558010959 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 272558010960 ATP binding site [chemical binding]; other site 272558010961 Mg2+ binding site [ion binding]; other site 272558010962 G-X-G motif; other site 272558010963 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 272558010964 ligand binding site [chemical binding]; other site 272558010965 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 272558010966 dimerization interface [polypeptide binding]; other site 272558010967 Histidine kinase; Region: His_kinase; pfam06580 272558010968 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 272558010969 ATP binding site [chemical binding]; other site 272558010970 Mg2+ binding site [ion binding]; other site 272558010971 G-X-G motif; other site 272558010972 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 272558010973 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 272558010974 active site 272558010975 phosphorylation site [posttranslational modification] 272558010976 intermolecular recognition site; other site 272558010977 dimerization interface [polypeptide binding]; other site 272558010978 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 272558010980 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 272558010981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558010982 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 272558010983 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 272558010984 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 272558010985 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 272558010986 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 272558010987 dimer interface [polypeptide binding]; other site 272558010988 conserved gate region; other site 272558010989 putative PBP binding loops; other site 272558010990 ABC-ATPase subunit interface; other site 272558010991 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 272558010992 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 272558010993 dimer interface [polypeptide binding]; other site 272558010994 conserved gate region; other site 272558010995 putative PBP binding loops; other site 272558010996 ABC-ATPase subunit interface; other site 272558010997 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 272558010998 active site 272558010999 catalytic tetrad [active] 272558011000 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 272558011001 ligand binding site [chemical binding]; other site 272558011002 active site 272558011003 UGI interface [polypeptide binding]; other site 272558011004 catalytic site [active] 272558011005 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 272558011006 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 272558011007 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 272558011008 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 272558011009 active site 272558011010 phosphorylation site [posttranslational modification] 272558011011 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 272558011012 Helix-turn-helix domains; Region: HTH; cl00088 272558011013 Helix-turn-helix domains; Region: HTH; cl00088 272558011014 PRD domain; Region: PRD; cl15445 272558011015 PRD domain; Region: PRD; cl15445 272558011016 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 272558011017 P-loop; other site 272558011018 active site 272558011019 phosphorylation site [posttranslational modification] 272558011020 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 272558011021 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 272558011022 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558011023 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 272558011024 active site 272558011025 P-loop; other site 272558011026 phosphorylation site [posttranslational modification] 272558011027 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 272558011028 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 272558011029 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 272558011030 DNA binding residues [nucleotide binding] 272558011031 dimer interface [polypeptide binding]; other site 272558011032 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 272558011033 dimer interface [polypeptide binding]; other site 272558011034 FMN binding site [chemical binding]; other site 272558011035 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558011036 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 272558011037 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 272558011038 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 272558011039 PA/protease domain interface [polypeptide binding]; other site 272558011040 putative integrin binding motif; other site 272558011041 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 272558011042 metal binding site [ion binding]; metal-binding site 272558011043 CHASE3 domain; Region: CHASE3; cl05000 272558011044 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 272558011045 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 272558011046 dimerization interface [polypeptide binding]; other site 272558011047 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558011048 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558011049 beta-phosphoglucomutase; Region: bPGM; TIGR01990 272558011050 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 272558011051 motif II; other site 272558011052 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 272558011053 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_7; cd06244 272558011054 putative active site [active] 272558011055 Zn binding site [ion binding]; other site 272558011056 Predicted permeases [General function prediction only]; Region: RarD; COG2962 272558011057 glutamine synthetase, type I; Region: GlnA; TIGR00653 272558011058 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 272558011059 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 272558011060 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 272558011061 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 272558011062 Ca binding site [ion binding]; other site 272558011063 active site 272558011064 catalytic site [active] 272558011065 Domain of unknown function (DUF897); Region: DUF897; cl01312 272558011066 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 272558011067 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272558011068 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 272558011069 [2Fe-2S] cluster binding site [ion binding]; other site 272558011070 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 272558011071 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 272558011072 dimer interface [polypeptide binding]; other site 272558011073 putative metal binding site [ion binding]; other site 272558011074 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 272558011075 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 272558011076 PYR/PP interface [polypeptide binding]; other site 272558011077 dimer interface [polypeptide binding]; other site 272558011078 TPP binding site [chemical binding]; other site 272558011079 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 272558011080 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 272558011081 TPP-binding site [chemical binding]; other site 272558011082 Domain of unknown function DUF77; Region: DUF77; cl00307 272558011083 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 272558011084 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 272558011085 metal binding site [ion binding]; metal-binding site 272558011086 putative dimer interface [polypeptide binding]; other site 272558011087 hypothetical protein; Provisional; Region: PRK03057 272558011088 UPF0302 domain; Region: UPF0302; pfam08864 272558011089 IDEAL domain; Region: IDEAL; cl07452 272558011090 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 272558011091 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 272558011092 putative DNA binding site [nucleotide binding]; other site 272558011093 putative Zn2+ binding site [ion binding]; other site 272558011094 Helix-turn-helix domains; Region: HTH; cl00088 272558011095 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272558011096 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 272558011097 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558011098 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 272558011099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272558011100 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 272558011101 DNA binding residues [nucleotide binding] 272558011102 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272558011103 Helix-turn-helix domains; Region: HTH; cl00088 272558011104 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558011105 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 272558011106 H+ Antiporter protein; Region: 2A0121; TIGR00900 272558011107 putative substrate translocation pore; other site 272558011108 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 272558011109 putative DNA binding site [nucleotide binding]; other site 272558011110 dimerization interface [polypeptide binding]; other site 272558011111 putative Zn2+ binding site [ion binding]; other site 272558011112 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 272558011113 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 272558011114 TIGR01777 family protein; Region: yfcH 272558011115 putative NAD(P) binding site [chemical binding]; other site 272558011116 putative active site [active] 272558011117 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 272558011118 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 272558011119 putative ligand binding residues [chemical binding]; other site 272558011120 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272558011121 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558011122 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 272558011123 Walker A/P-loop; other site 272558011124 ATP binding site [chemical binding]; other site 272558011125 Q-loop/lid; other site 272558011126 ABC transporter signature motif; other site 272558011127 Walker B; other site 272558011128 D-loop; other site 272558011129 H-loop/switch region; other site 272558011130 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 272558011131 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 272558011132 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 272558011133 Walker A/P-loop; other site 272558011134 ATP binding site [chemical binding]; other site 272558011135 Q-loop/lid; other site 272558011136 ABC transporter signature motif; other site 272558011137 Walker B; other site 272558011138 D-loop; other site 272558011139 H-loop/switch region; other site 272558011140 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558011141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558011142 Walker A/P-loop; other site 272558011143 ATP binding site [chemical binding]; other site 272558011144 Q-loop/lid; other site 272558011145 ABC transporter signature motif; other site 272558011146 Walker B; other site 272558011147 D-loop; other site 272558011148 H-loop/switch region; other site 272558011149 LytTr DNA-binding domain; Region: LytTR; cl04498 272558011150 BCCT family transporter; Region: BCCT; cl00569 272558011151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558011152 NAD(P) binding site [chemical binding]; other site 272558011153 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 272558011154 active site 272558011155 Citrate transporter; Region: CitMHS; pfam03600 272558011156 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 272558011157 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 272558011158 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 272558011159 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 272558011160 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 272558011161 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 272558011162 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 272558011163 Walker A motif; other site 272558011164 ATP binding site [chemical binding]; other site 272558011165 Walker B motif; other site 272558011166 arginine finger; other site 272558011167 Helix-turn-helix domains; Region: HTH; cl00088 272558011168 CHASE3 domain; Region: CHASE3; cl05000 272558011169 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 272558011170 dimerization interface [polypeptide binding]; other site 272558011171 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558011172 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558011173 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 272558011174 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 272558011175 putative ligand binding site [chemical binding]; other site 272558011176 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 272558011177 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 272558011178 NodB motif; other site 272558011179 active site 272558011180 catalytic site [active] 272558011181 Zn binding site [ion binding]; other site 272558011182 Cache domain; Region: Cache_1; pfam02743 272558011183 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 272558011184 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558011185 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558011186 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 272558011187 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 272558011188 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 272558011189 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 272558011190 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 272558011191 substrate-cofactor binding pocket; other site 272558011192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558011193 catalytic residue [active] 272558011194 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272558011195 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 272558011196 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 272558011197 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 272558011198 S-adenosylmethionine binding site [chemical binding]; other site 272558011199 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558011200 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 272558011201 active site 272558011202 phosphorylation site [posttranslational modification] 272558011203 intermolecular recognition site; other site 272558011204 dimerization interface [polypeptide binding]; other site 272558011205 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 272558011206 DNA binding site [nucleotide binding] 272558011207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 272558011208 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 272558011209 dimer interface [polypeptide binding]; other site 272558011210 phosphorylation site [posttranslational modification] 272558011211 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 272558011212 ATP binding site [chemical binding]; other site 272558011213 Mg2+ binding site [ion binding]; other site 272558011214 G-X-G motif; other site 272558011215 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272558011216 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 272558011217 Walker A/P-loop; other site 272558011218 ATP binding site [chemical binding]; other site 272558011219 Q-loop/lid; other site 272558011220 ABC transporter signature motif; other site 272558011221 Walker B; other site 272558011222 D-loop; other site 272558011223 H-loop/switch region; other site 272558011224 FtsX-like permease family; Region: FtsX; cl15850 272558011225 Cache domain; Region: Cache_1; pfam02743 272558011226 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 272558011227 dimerization interface [polypeptide binding]; other site 272558011228 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 272558011229 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 272558011230 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 272558011231 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 272558011232 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 272558011233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 272558011234 DNA-binding site [nucleotide binding]; DNA binding site 272558011235 UTRA domain; Region: UTRA; cl01230 272558011236 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 272558011237 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 272558011238 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 272558011239 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 272558011240 active site 272558011241 methionine cluster; other site 272558011242 phosphorylation site [posttranslational modification] 272558011243 metal binding site [ion binding]; metal-binding site 272558011244 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 272558011245 active site 272558011246 P-loop; other site 272558011247 phosphorylation site [posttranslational modification] 272558011248 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 272558011249 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 272558011250 tetramer interface [polypeptide binding]; other site 272558011251 active site 272558011252 Mg2+/Mn2+ binding site [ion binding]; other site 272558011253 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 272558011254 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 272558011255 dimer interface [polypeptide binding]; other site 272558011256 Citrate synthase; Region: Citrate_synt; pfam00285 272558011257 active site 272558011258 coenzyme A binding site [chemical binding]; other site 272558011259 citrylCoA binding site [chemical binding]; other site 272558011260 oxalacetate/citrate binding site [chemical binding]; other site 272558011261 catalytic triad [active] 272558011262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 272558011263 Helix-turn-helix domains; Region: HTH; cl00088 272558011264 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 272558011265 dimerization interface [polypeptide binding]; other site 272558011266 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272558011267 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 272558011268 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 272558011269 active site 272558011270 catalytic tetrad [active] 272558011271 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272558011272 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 272558011273 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 272558011274 active site 272558011275 metal binding site [ion binding]; metal-binding site 272558011276 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 272558011277 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 272558011278 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 272558011279 glycolate transporter; Provisional; Region: PRK09695 272558011280 L-lactate permease; Region: Lactate_perm; cl00701 272558011281 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 272558011282 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 272558011283 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558011284 NAD binding site [chemical binding]; other site 272558011285 dimer interface [polypeptide binding]; other site 272558011286 substrate binding site [chemical binding]; other site 272558011287 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 272558011288 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 272558011289 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 272558011290 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 272558011291 Glutamate binding site [chemical binding]; other site 272558011292 homodimer interface [polypeptide binding]; other site 272558011293 NAD binding site [chemical binding]; other site 272558011294 catalytic residues [active] 272558011295 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 272558011296 carboxyltransferase (CT) interaction site; other site 272558011297 biotinylation site [posttranslational modification]; other site 272558011298 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272558011299 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272558011300 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 272558011301 NAD(P) binding site [chemical binding]; other site 272558011302 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 272558011303 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 272558011304 inhibitor-cofactor binding pocket; inhibition site 272558011305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272558011306 catalytic residue [active] 272558011307 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 272558011308 sensory histidine kinase AtoS; Provisional; Region: PRK11360 272558011309 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 272558011310 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 272558011311 Walker A motif; other site 272558011312 ATP binding site [chemical binding]; other site 272558011313 Walker B motif; other site 272558011314 arginine finger; other site 272558011315 Helix-turn-helix domains; Region: HTH; cl00088 272558011316 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 272558011317 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 272558011318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 272558011319 Arginase family; Region: Arginase; cl00306 272558011320 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 272558011321 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 272558011322 putative NAD(P) binding site [chemical binding]; other site 272558011323 catalytic Zn binding site [ion binding]; other site 272558011324 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 272558011325 Integrase core domain; Region: rve; cl01316 272558011326 Helix-turn-helix domains; Region: HTH; cl00088 272558011327 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 272558011328 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 272558011329 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 272558011330 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 272558011331 S-adenosylmethionine binding site [chemical binding]; other site 272558011332 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 272558011333 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 272558011334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558011335 NAD(P) binding pocket [chemical binding]; other site 272558011336 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 272558011337 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 272558011338 dimer interface [polypeptide binding]; other site 272558011339 active site 272558011340 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 272558011341 catalytic residues [active] 272558011342 substrate binding site [chemical binding]; other site 272558011343 Protein of unknown function (DUF2535); Region: DUF2535; pfam10751 272558011344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558011345 Predicted dehydrogenase [General function prediction only]; Region: COG0579 272558011346 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558011347 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 272558011348 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 272558011349 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 272558011350 active site 272558011351 catalytic triad [active] 272558011352 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 272558011353 Interdomain contacts; other site 272558011354 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 272558011355 Cytokine receptor motif; other site 272558011356 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 272558011357 Replication protein; Region: Rep_1; cl02412 272558011358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 272558011359 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 272558011360 DNA-binding interface [nucleotide binding]; DNA binding site 272558011361 Integrase core domain; Region: rve; cl01316 272558011362 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 272558011363 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 272558011364 Walker A motif; other site 272558011365 ATP binding site [chemical binding]; other site 272558011366 Walker B motif; other site 272558011367 arginine finger; other site 272558011368 VanZ like family; Region: VanZ; cl01971 272558011369 transglutaminase; Provisional; Region: tgl; PRK03187 272558011370 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 272558011371 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558011372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558011373 Walker A/P-loop; other site 272558011374 ATP binding site [chemical binding]; other site 272558011375 Q-loop/lid; other site 272558011376 ABC transporter signature motif; other site 272558011377 Walker B; other site 272558011378 D-loop; other site 272558011379 H-loop/switch region; other site 272558011380 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 272558011381 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272558011382 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558011383 Walker A/P-loop; other site 272558011384 ATP binding site [chemical binding]; other site 272558011385 Q-loop/lid; other site 272558011386 ABC transporter signature motif; other site 272558011387 Walker B; other site 272558011388 D-loop; other site 272558011389 H-loop/switch region; other site 272558011390 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 272558011391 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272558011392 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 272558011393 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 272558011394 ABC-2 type transporter; Region: ABC2_membrane; cl11417 272558011395 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 272558011396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558011397 Walker A/P-loop; other site 272558011398 ATP binding site [chemical binding]; other site 272558011399 Q-loop/lid; other site 272558011400 ABC transporter signature motif; other site 272558011401 Walker B; other site 272558011402 D-loop; other site 272558011403 H-loop/switch region; other site 272558011404 Protein of unknown function (DUF1048); Region: DUF1048; cl01986 272558011405 Helix-turn-helix domains; Region: HTH; cl00088 272558011406 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 272558011407 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 272558011408 Flavin Reductases; Region: FlaRed; cl00801 272558011409 Transposase domain (DUF772); Region: DUF772; cl15789 272558011410 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558011411 Transposase domain (DUF772); Region: DUF772; cl15789 272558011412 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558011413 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 272558011414 DinB superfamily; Region: DinB_2; pfam12867 272558011415 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558011416 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558011417 Helix-turn-helix domains; Region: HTH; cl00088 272558011418 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 272558011419 GIY-YIG motif/motif A; other site 272558011420 putative active site [active] 272558011421 putative metal binding site [ion binding]; other site 272558011422 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 272558011423 Uncharacterized conserved protein [Function unknown]; Region: COG3410 272558011424 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272558011425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 272558011426 Integrase core domain; Region: rve; cl01316 272558011427 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 272558011428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272558011429 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 272558011430 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 272558011431 Walker A motif; other site 272558011432 ATP binding site [chemical binding]; other site 272558011433 Walker B motif; other site 272558011434 arginine finger; other site 272558011435 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 272558011436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272558011437 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 272558011438 Transposase domain (DUF772); Region: DUF772; cl12084 272558011439 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 272558011440 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 272558011441 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 272558011442 CxxH/CxxC protein, BA_5709 family; Region: CxxH_BA5709; TIGR04129 272558011443 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272558011444 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 272558011445 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 272558011446 active site 272558011447 catalytic site [active] 272558011448 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 272558011449 Uncharacterized conserved protein [Function unknown]; Region: COG5444 272558011450 serine endoprotease; Provisional; Region: PRK10898 272558011451 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 272558011452 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 272558011453 protein binding site [polypeptide binding]; other site 272558011454 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272558011455 YycH protein; Region: YycI; cl02015 272558011456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 272558011457 YycH protein; Region: YycH; pfam07435 272558011458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 272558011459 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 272558011460 dimerization interface [polypeptide binding]; other site 272558011461 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 272558011462 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 272558011463 dimer interface [polypeptide binding]; other site 272558011464 phosphorylation site [posttranslational modification] 272558011465 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 272558011466 ATP binding site [chemical binding]; other site 272558011467 Mg2+ binding site [ion binding]; other site 272558011468 G-X-G motif; other site 272558011469 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272558011470 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 272558011471 active site 272558011472 phosphorylation site [posttranslational modification] 272558011473 intermolecular recognition site; other site 272558011474 dimerization interface [polypeptide binding]; other site 272558011475 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 272558011476 DNA binding site [nucleotide binding] 272558011477 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 272558011478 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 272558011479 GDP-binding site [chemical binding]; other site 272558011480 ACT binding site; other site 272558011481 IMP binding site; other site 272558011482 replicative DNA helicase; Provisional; Region: PRK05748 272558011483 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272558011484 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 272558011485 Walker A motif; other site 272558011486 ATP binding site [chemical binding]; other site 272558011487 Walker B motif; other site 272558011488 DNA binding loops [nucleotide binding] 272558011489 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272558011490 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272558011491 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272558011492 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 272558011493 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 272558011494 DHH family; Region: DHH; pfam01368 272558011495 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 272558011496 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272558011497 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 272558011498 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 272558011499 metal-binding site [ion binding] 272558011500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272558011501 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272558011502 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 272558011503 dimerization interface [polypeptide binding]; other site 272558011504 putative DNA binding site [nucleotide binding]; other site 272558011505 putative Zn2+ binding site [ion binding]; other site 272558011506 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 272558011507 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 272558011508 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 272558011509 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 272558011510 Phage integrase family; Region: Phage_integrase; pfam00589 272558011511 Int/Topo IB signature motif; other site 272558011512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 272558011513 Transposase; Region: DEDD_Tnp_IS110; pfam01548 272558011514 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 272558011515 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 272558011516 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 272558011517 Helix-turn-helix domains; Region: HTH; cl00088 272558011518 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 272558011519 MatE; Region: MatE; cl10513 272558011520 MatE; Region: MatE; cl10513 272558011521 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 272558011522 DNA binding residues [nucleotide binding] 272558011523 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 272558011524 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 272558011525 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 272558011526 dimer interface [polypeptide binding]; other site 272558011527 ssDNA binding site [nucleotide binding]; other site 272558011528 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272558011529 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 272558011530 GTP-binding protein YchF; Reviewed; Region: PRK09601 272558011531 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 272558011532 G1 box; other site 272558011533 GTP/Mg2+ binding site [chemical binding]; other site 272558011534 Switch I region; other site 272558011535 G2 box; other site 272558011536 Switch II region; other site 272558011537 G3 box; other site 272558011538 G4 box; other site 272558011539 G5 box; other site 272558011540 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 272558011541 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 272558011542 Uncharacterized membrane protein [Function unknown]; Region: COG3949 272558011543 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 272558011544 Protein of unknown function (DUF554); Region: DUF554; cl00784 272558011545 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 272558011546 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 272558011547 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272558011548 catalytic residue [active] 272558011549 ParB-like partition proteins; Region: parB_part; TIGR00180 272558011550 ParB-like nuclease domain; Region: ParBc; cl02129 272558011551 KorB domain; Region: KorB; pfam08535 272558011552 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272558011553 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272558011554 P-loop; other site 272558011555 Magnesium ion binding site [ion binding]; other site 272558011556 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 272558011557 Magnesium ion binding site [ion binding]; other site 272558011558 ParB-like partition proteins; Region: parB_part; TIGR00180 272558011559 ParB-like nuclease domain; Region: ParBc; cl02129 272558011560 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 272558011561 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272558011562 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 272558011563 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272558011564 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272558011565 trmE is a tRNA modification GTPase; Region: trmE; cd04164 272558011566 G1 box; other site 272558011567 GTP/Mg2+ binding site [chemical binding]; other site 272558011568 Switch I region; other site 272558011569 G2 box; other site 272558011570 Switch II region; other site 272558011571 G3 box; other site 272558011572 G4 box; other site 272558011573 G5 box; other site 272558011574 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272558011575 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 272558011576 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 272558011577 G-X-X-G motif; other site 272558011578 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 272558011579 RxxxH motif; other site 272558011580 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272558011581 Ribonuclease P; Region: Ribonuclease_P; cl00457 272558011582 Ribosomal protein L34; Region: Ribosomal_L34; cl00370