-- dump date 20140619_043628 -- class Genbank::misc_feature -- table misc_feature_note -- id note 441772000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 441772000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 441772000003 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 441772000004 Walker A motif; other site 441772000005 ATP binding site [chemical binding]; other site 441772000006 Walker B motif; other site 441772000007 arginine finger; other site 441772000008 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 441772000009 DnaA box-binding interface [nucleotide binding]; other site 441772000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 441772000011 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 441772000012 putative DNA binding surface [nucleotide binding]; other site 441772000013 dimer interface [polypeptide binding]; other site 441772000014 beta-clamp/clamp loader binding surface; other site 441772000015 beta-clamp/translesion DNA polymerase binding surface; other site 441772000016 S4 domain; Region: S4_2; pfam13275 441772000017 recombination protein F; Reviewed; Region: recF; PRK00064 441772000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 441772000019 Walker A/P-loop; other site 441772000020 ATP binding site [chemical binding]; other site 441772000021 Q-loop/lid; other site 441772000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772000023 ABC transporter signature motif; other site 441772000024 Walker B; other site 441772000025 D-loop; other site 441772000026 H-loop/switch region; other site 441772000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 441772000028 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 441772000029 Mg2+ binding site [ion binding]; other site 441772000030 G-X-G motif; other site 441772000031 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 441772000032 anchoring element; other site 441772000033 dimer interface [polypeptide binding]; other site 441772000034 ATP binding site [chemical binding]; other site 441772000035 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 441772000036 active site 441772000037 putative metal-binding site [ion binding]; other site 441772000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 441772000039 DNA gyrase subunit A; Validated; Region: PRK05560 441772000040 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...; Region: TOP4c; cd00187 441772000041 CAP-like domain; other site 441772000042 active site 441772000043 primary dimer interface [polypeptide binding]; other site 441772000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772000050 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 441772000051 HTH domain; Region: HTH_11; pfam08279 441772000052 3H domain; Region: 3H; pfam02829 441772000053 Uncharacterized conserved protein [Function unknown]; Region: COG2006 441772000054 Domain of unknown function (DUF362); Region: DUF362; pfam04015 441772000055 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772000056 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 441772000057 hypothetical protein; Validated; Region: PRK00068 441772000058 Uncharacterized conserved protein [Function unknown]; Region: COG1615 441772000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 441772000060 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 441772000061 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772000062 hydroxyglutarate oxidase; Provisional; Region: PRK11728 441772000063 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 441772000064 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 441772000065 seryl-tRNA synthetase; Provisional; Region: PRK05431 441772000066 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 441772000067 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...; Region: SerRS_core; cd00770 441772000068 dimer interface [polypeptide binding]; other site 441772000069 active site 441772000070 motif 1; other site 441772000071 motif 2; other site 441772000072 motif 3; other site 441772000073 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 441772000074 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 441772000075 ABC1 family; Region: ABC1; cl17513 441772000076 Uncharacterized conserved protein [Function unknown]; Region: COG3937 441772000077 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 441772000078 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 441772000079 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 441772000080 Walker A motif; other site 441772000081 ATP binding site [chemical binding]; other site 441772000082 Walker B motif; other site 441772000083 arginine finger; other site 441772000084 methionine gamma-lyase; Provisional; Region: PRK06234 441772000085 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 441772000086 homodimer interface [polypeptide binding]; other site 441772000087 substrate-cofactor binding pocket; other site 441772000088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000089 catalytic residue [active] 441772000090 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 441772000091 nucleoside/Zn binding site; other site 441772000092 dimer interface [polypeptide binding]; other site 441772000093 catalytic motif [active] 441772000094 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 441772000095 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 441772000096 Walker A motif; other site 441772000097 ATP binding site [chemical binding]; other site 441772000098 Walker B motif; other site 441772000099 arginine finger; other site 441772000100 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 441772000101 hypothetical protein; Validated; Region: PRK00153 441772000102 recombination protein RecR; Reviewed; Region: recR; PRK00076 441772000103 RecR protein; Region: RecR; pfam02132 441772000104 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 441772000105 putative active site [active] 441772000106 putative metal-binding site [ion binding]; other site 441772000107 tetramer interface [polypeptide binding]; other site 441772000108 Protein of unknown function (DUF2508); Region: DUF2508; pfam10704 441772000109 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 441772000110 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 441772000111 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 441772000112 putative NADH binding site [chemical binding]; other site 441772000113 putative active site [active] 441772000114 nudix motif; other site 441772000115 putative metal binding site [ion binding]; other site 441772000116 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; cl17186 441772000117 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772000118 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772000119 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 441772000120 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 441772000121 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 441772000122 putative ATP binding site [chemical binding]; other site 441772000123 putative substrate interface [chemical binding]; other site 441772000124 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 441772000125 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772000126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 441772000127 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 441772000128 active site 441772000129 Fe-S cluster binding site [ion binding]; other site 441772000130 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772000131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772000132 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 441772000133 DNA binding residues [nucleotide binding] 441772000134 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772000135 SurA N-terminal domain; Region: SurA_N_3; cl07813 441772000136 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 441772000137 NAD-dependent deacetylase; Provisional; Region: PRK00481 441772000138 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 441772000139 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 441772000140 dimer interface [polypeptide binding]; other site 441772000141 catalytic triad [active] 441772000142 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 441772000143 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 441772000144 Cl binding site [ion binding]; other site 441772000145 oligomer interface [polypeptide binding]; other site 441772000146 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 441772000147 amidohydrolase; Region: amidohydrolases; TIGR01891 441772000148 metal binding site [ion binding]; metal-binding site 441772000149 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 441772000150 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 441772000151 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 441772000152 homodimer interface [polypeptide binding]; other site 441772000153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000154 catalytic residue [active] 441772000155 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 441772000156 thymidylate kinase; Provisional; Region: PRK13975; cl17243 441772000157 Protein of unknown function (DUF970); Region: DUF970; pfam06153 441772000158 DNA polymerase III subunit delta'; Validated; Region: PRK05564 441772000159 DNA polymerase III subunit delta'; Validated; Region: PRK08485 441772000160 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 441772000161 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 441772000162 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 441772000163 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772000164 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 441772000165 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 441772000166 S-adenosylmethionine binding site [chemical binding]; other site 441772000167 Predicted methyltransferases [General function prediction only]; Region: COG0313 441772000168 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 441772000169 putative SAM binding site [chemical binding]; other site 441772000170 putative homodimer interface [polypeptide binding]; other site 441772000171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 441772000172 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 441772000173 NlpC/P60 family; Region: NLPC_P60; pfam00877 441772000174 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 441772000175 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 441772000176 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 441772000177 arginine deiminase; Provisional; Region: PRK01388 441772000178 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 441772000179 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 441772000180 homotrimer interaction site [polypeptide binding]; other site 441772000181 zinc binding site [ion binding]; other site 441772000182 CDP-binding sites; other site 441772000183 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772000184 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 441772000185 putative active site [active] 441772000186 putative metal binding site [ion binding]; other site 441772000187 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 441772000188 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 441772000189 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772000190 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 441772000191 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 441772000192 Fe-S cluster binding site [ion binding]; other site 441772000193 active site 441772000194 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772000195 MarR family; Region: MarR_2; cl17246 441772000196 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 441772000197 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 441772000198 active site 441772000199 HIGH motif; other site 441772000200 KMSKS motif; other site 441772000201 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 441772000202 anticodon binding site; other site 441772000203 tRNA binding surface [nucleotide binding]; other site 441772000204 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 441772000205 dimer interface [polypeptide binding]; other site 441772000206 putative tRNA-binding site [nucleotide binding]; other site 441772000207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 441772000208 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 441772000209 active site 441772000210 Domain of unknown function (DUF348); Region: DUF348; pfam03990 441772000211 Domain of unknown function (DUF348); Region: DUF348; pfam03990 441772000212 G5 domain; Region: G5; pfam07501 441772000213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 441772000214 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 441772000215 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 441772000216 putative active site [active] 441772000217 putative metal binding site [ion binding]; other site 441772000218 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 441772000219 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 441772000220 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 441772000221 S-adenosylmethionine binding site [chemical binding]; other site 441772000222 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 441772000223 HlyD family secretion protein; Region: HlyD_3; pfam13437 441772000224 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000225 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772000226 Walker A/P-loop; other site 441772000227 ATP binding site [chemical binding]; other site 441772000228 Q-loop/lid; other site 441772000229 ABC transporter signature motif; other site 441772000230 Walker B; other site 441772000231 D-loop; other site 441772000232 H-loop/switch region; other site 441772000233 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772000234 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772000235 FtsX-like permease family; Region: FtsX; pfam02687 441772000236 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 441772000237 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 441772000238 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 441772000239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772000240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772000241 metal binding site [ion binding]; metal-binding site 441772000242 active site 441772000243 I-site; other site 441772000244 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 441772000245 MgtC family; Region: MgtC; pfam02308 441772000246 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 441772000247 ATP cone domain; Region: ATP-cone; pfam03477 441772000248 Class III ribonucleotide reductase; Region: RNR_III; cd01675 441772000249 effector binding site; other site 441772000250 active site 441772000251 Zn binding site [ion binding]; other site 441772000252 glycine loop; other site 441772000253 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 441772000254 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 441772000255 MSEP-CTERM protein; Region: MSEP-CTERM; TIGR04286 441772000256 Predicted transcriptional regulators [Transcription]; Region: COG1695 441772000257 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 441772000258 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 441772000259 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 441772000260 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 441772000261 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 441772000262 HIGH motif; other site 441772000263 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 441772000264 active site 441772000265 KMSKS motif; other site 441772000266 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 441772000267 tRNA binding surface [nucleotide binding]; other site 441772000268 anticodon binding site; other site 441772000269 Transcriptional regulators [Transcription]; Region: PurR; COG1609 441772000270 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 441772000271 DNA binding site [nucleotide binding] 441772000272 domain linker motif; other site 441772000273 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 441772000274 AAA domain; Region: AAA_11; pfam13086 441772000275 Part of AAA domain; Region: AAA_19; pfam13245 441772000276 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 441772000277 AAA domain; Region: AAA_12; pfam13087 441772000278 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 441772000279 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 441772000280 Substrate binding site; other site 441772000281 Cupin domain; Region: Cupin_2; cl17218 441772000282 hypothetical protein; Provisional; Region: PRK04194 441772000283 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 441772000284 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 441772000285 Ligand Binding Site [chemical binding]; other site 441772000286 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 441772000287 AIR carboxylase; Region: AIRC; smart01001 441772000288 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 441772000289 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 441772000290 FeS/SAM binding site; other site 441772000291 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772000292 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 441772000293 glycosyltransferase, GG-Bacteroidales peptide system; Region: glyco_rSAM_CFB; TIGR04157 441772000294 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000295 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 441772000296 substrate binding site [chemical binding]; other site 441772000297 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000298 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000299 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 441772000300 substrate binding site [chemical binding]; other site 441772000301 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772000302 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 441772000303 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772000304 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; cl17270 441772000305 active site 441772000306 ATP binding site [chemical binding]; other site 441772000307 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 441772000308 substrate binding site [chemical binding]; other site 441772000309 YabG peptidase U57; Region: Peptidase_U57; pfam05582 441772000310 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 441772000311 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000312 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000313 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772000314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772000315 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 441772000316 proposed catalytic triad [active] 441772000317 active site nucleophile [active] 441772000318 cyanophycin synthetase; Provisional; Region: PRK14016 441772000319 ATP-grasp domain; Region: ATP-grasp_4; cl17255 441772000320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772000321 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772000322 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 441772000323 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772000324 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772000325 Spore germination protein; Region: Spore_permease; cl17796 441772000326 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 441772000327 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 441772000328 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 441772000329 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 441772000330 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 441772000331 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 441772000332 germination protein YpeB; Region: spore_YpeB; TIGR02889 441772000333 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 441772000334 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 441772000335 Ligand Binding Site [chemical binding]; other site 441772000336 Domain of unknown function (DUF814); Region: DUF814; pfam05670 441772000337 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 441772000338 CTP synthetase; Validated; Region: pyrG; PRK05380 441772000339 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 441772000340 Catalytic site [active] 441772000341 active site 441772000342 UTP binding site [chemical binding]; other site 441772000343 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 441772000344 active site 441772000345 putative oxyanion hole; other site 441772000346 catalytic triad [active] 441772000347 transcription termination factor Rho; Provisional; Region: rho; PRK09376 441772000348 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 441772000349 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 441772000350 RNA binding site [nucleotide binding]; other site 441772000351 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 441772000352 Walker A motif; other site 441772000353 ATP binding site [chemical binding]; other site 441772000354 Walker B motif; other site 441772000355 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 441772000356 thymidine kinase; Provisional; Region: PRK04296 441772000357 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 441772000358 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 441772000359 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 441772000360 peptide chain release factor 1; Validated; Region: prfA; PRK00591 441772000361 This domain is found in peptide chain release factors; Region: PCRF; smart00937 441772000362 RF-1 domain; Region: RF-1; pfam00472 441772000363 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 441772000364 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 441772000365 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 441772000366 Low molecular weight phosphatase family; Region: LMWPc; cd00115 441772000367 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 441772000368 active site 441772000369 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 441772000370 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000371 active site 441772000372 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 441772000373 active site 441772000374 Zn binding site [ion binding]; other site 441772000375 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 441772000376 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 441772000377 Mg++ binding site [ion binding]; other site 441772000378 putative catalytic motif [active] 441772000379 substrate binding site [chemical binding]; other site 441772000380 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 441772000381 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 441772000382 active site 441772000383 homodimer interface [polypeptide binding]; other site 441772000384 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 441772000385 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 441772000386 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 441772000387 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 441772000388 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 441772000389 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 441772000390 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 441772000391 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 441772000392 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 441772000393 beta subunit interaction interface [polypeptide binding]; other site 441772000394 Walker A motif; other site 441772000395 ATP binding site [chemical binding]; other site 441772000396 Walker B motif; other site 441772000397 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772000398 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 441772000399 core domain interface [polypeptide binding]; other site 441772000400 delta subunit interface [polypeptide binding]; other site 441772000401 epsilon subunit interface [polypeptide binding]; other site 441772000402 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 441772000403 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 441772000404 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 441772000405 alpha subunit interaction interface [polypeptide binding]; other site 441772000406 Walker A motif; other site 441772000407 ATP binding site [chemical binding]; other site 441772000408 Walker B motif; other site 441772000409 inhibitor binding site; inhibition site 441772000410 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772000411 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 441772000412 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 441772000413 gamma subunit interface [polypeptide binding]; other site 441772000414 epsilon subunit interface [polypeptide binding]; other site 441772000415 LBP interface [polypeptide binding]; other site 441772000416 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 441772000417 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 441772000418 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 441772000419 hinge; other site 441772000420 active site 441772000421 stage II sporulation protein D; Region: spore_II_D; TIGR02870 441772000422 Stage II sporulation protein; Region: SpoIID; pfam08486 441772000423 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 441772000424 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772000425 Stage III sporulation protein D; Region: SpoIIID; pfam12116 441772000426 rod shape-determining protein Mbl; Provisional; Region: PRK13928 441772000427 MreB and similar proteins; Region: MreB_like; cd10225 441772000428 nucleotide binding site [chemical binding]; other site 441772000429 Mg binding site [ion binding]; other site 441772000430 putative protofilament interaction site [polypeptide binding]; other site 441772000431 RodZ interaction site [polypeptide binding]; other site 441772000432 Protein of unknown function (DUF1256); Region: DUF1256; pfam06866 441772000433 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772000434 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772000435 Ligand Binding Site [chemical binding]; other site 441772000436 S-adenosylmethionine synthetase; Validated; Region: PRK05250 441772000437 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 441772000438 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 441772000439 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 441772000440 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 441772000441 AAA domain; Region: AAA_30; pfam13604 441772000442 Family description; Region: UvrD_C_2; pfam13538 441772000443 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 441772000444 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 441772000445 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000446 active site 441772000447 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...; Region: RaiA; cd00552 441772000448 30S subunit binding site; other site 441772000449 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 441772000450 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; cl17251 441772000451 ATP binding site [chemical binding]; other site 441772000452 putative Mg++ binding site [ion binding]; other site 441772000453 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 441772000454 SEC-C motif; Region: SEC-C; pfam02810 441772000455 peptide chain release factor 2; Provisional; Region: PRK05589 441772000456 PCRF domain; Region: PCRF; pfam03462 441772000457 RF-1 domain; Region: RF-1; pfam00472 441772000458 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 441772000459 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 441772000460 Peptidase family M28; Region: Peptidase_M28; pfam04389 441772000461 metal binding site [ion binding]; metal-binding site 441772000462 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 441772000463 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 441772000464 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 441772000465 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 441772000466 RNA binding site [nucleotide binding]; other site 441772000467 Predicted membrane protein [Function unknown]; Region: COG3601 441772000468 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772000469 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 441772000470 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain; Region: MPP_DR1119; cd07393 441772000471 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772000472 putative active site [active] 441772000473 putative metal binding site [ion binding]; other site 441772000474 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 441772000475 dimerization interface [polypeptide binding]; other site 441772000476 putative DNA binding site [nucleotide binding]; other site 441772000477 putative Zn2+ binding site [ion binding]; other site 441772000478 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 441772000479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772000480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772000481 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772000482 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 441772000483 active site residue [active] 441772000484 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 441772000485 CPxP motif; other site 441772000486 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 441772000487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 441772000488 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 441772000489 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772000490 synthetase active site [active] 441772000491 NTP binding site [chemical binding]; other site 441772000492 metal binding site [ion binding]; metal-binding site 441772000493 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 441772000494 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 441772000495 HIGH motif; other site 441772000496 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 441772000497 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772000498 active site 441772000499 KMSKS motif; other site 441772000500 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 441772000501 tRNA binding surface [nucleotide binding]; other site 441772000502 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 441772000503 active site residue [active] 441772000504 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 441772000505 HSP70 interaction site [polypeptide binding]; other site 441772000506 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 441772000507 putative active site [active] 441772000508 putative triphosphate binding site [ion binding]; other site 441772000509 dimer interface [polypeptide binding]; other site 441772000510 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 441772000511 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 441772000512 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 441772000513 intersubunit interface [polypeptide binding]; other site 441772000514 active site 441772000515 zinc binding site [ion binding]; other site 441772000516 Na+ binding site [ion binding]; other site 441772000517 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 441772000518 Predicted membrane protein [Function unknown]; Region: COG2323 441772000519 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 441772000520 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 441772000521 active site 441772000522 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 441772000523 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 441772000524 FOG: CBS domain [General function prediction only]; Region: COG0517 441772000525 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 441772000526 putative lipid kinase; Reviewed; Region: PRK13059 441772000527 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 441772000528 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 441772000529 hypothetical protein; Provisional; Region: PRK00955 441772000530 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 441772000531 PRC-barrel domain; Region: PRC; pfam05239 441772000532 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 441772000533 MgtE intracellular N domain; Region: MgtE_N; smart00924 441772000534 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 441772000535 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 441772000536 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 441772000537 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772000538 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772000539 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 441772000540 dimer interface [polypeptide binding]; other site 441772000541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772000542 catalytic residue [active] 441772000543 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 441772000544 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 441772000545 trimer interface [polypeptide binding]; other site 441772000546 active site 441772000547 substrate binding site [chemical binding]; other site 441772000548 CoA binding site [chemical binding]; other site 441772000549 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 441772000550 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 441772000551 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 441772000552 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 441772000553 putative acyl-acceptor binding pocket; other site 441772000554 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 441772000555 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 441772000556 minor groove reading motif; other site 441772000557 helix-hairpin-helix signature motif; other site 441772000558 substrate binding pocket [chemical binding]; other site 441772000559 active site 441772000560 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 441772000561 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 441772000562 Malic enzyme, N-terminal domain; Region: malic; pfam00390 441772000563 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 441772000564 putative NAD(P) binding site [chemical binding]; other site 441772000565 competence damage-inducible protein A; Provisional; Region: PRK00549 441772000566 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 441772000567 putative MPT binding site; other site 441772000568 Competence-damaged protein; Region: CinA; pfam02464 441772000569 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 441772000570 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 441772000571 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 441772000572 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 441772000573 putative oligomer interface [polypeptide binding]; other site 441772000574 putative active site [active] 441772000575 metal binding site [ion binding]; metal-binding site 441772000576 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772000577 VanW like protein; Region: VanW; pfam04294 441772000578 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772000579 VanW like protein; Region: VanW; pfam04294 441772000580 G5 domain; Region: G5; pfam07501 441772000581 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 441772000582 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 441772000583 FeS/SAM binding site; other site 441772000584 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 441772000585 EDD domain protein, DegV family; Region: DegV; TIGR00762 441772000586 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 441772000587 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 441772000588 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 441772000589 ligand binding site [chemical binding]; other site 441772000590 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 441772000591 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 441772000592 Walker A/P-loop; other site 441772000593 ATP binding site [chemical binding]; other site 441772000594 Q-loop/lid; other site 441772000595 ABC transporter signature motif; other site 441772000596 Walker B; other site 441772000597 D-loop; other site 441772000598 H-loop/switch region; other site 441772000599 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 441772000600 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 441772000601 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 441772000602 TM-ABC transporter signature motif; other site 441772000603 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 441772000604 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 441772000605 TM-ABC transporter signature motif; other site 441772000606 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772000607 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772000608 NodB motif; other site 441772000609 active site 441772000610 catalytic site [active] 441772000611 Zn binding site [ion binding]; other site 441772000612 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 441772000613 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 441772000614 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 441772000615 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 441772000616 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772000617 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772000618 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 441772000619 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 441772000620 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 441772000621 Phosphoglycerate kinase; Region: PGK; pfam00162 441772000622 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 441772000623 substrate binding site [chemical binding]; other site 441772000624 hinge regions; other site 441772000625 ADP binding site [chemical binding]; other site 441772000626 catalytic site [active] 441772000627 triosephosphate isomerase; Provisional; Region: PRK14567 441772000628 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 441772000629 substrate binding site [chemical binding]; other site 441772000630 dimer interface [polypeptide binding]; other site 441772000631 catalytic triad [active] 441772000632 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 441772000633 phosphoglyceromutase; Provisional; Region: PRK05434 441772000634 enolase; Provisional; Region: eno; PRK00077 441772000635 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 441772000636 dimer interface [polypeptide binding]; other site 441772000637 metal binding site [ion binding]; metal-binding site 441772000638 substrate binding pocket [chemical binding]; other site 441772000639 Preprotein translocase SecG subunit; Region: SecG; pfam03840 441772000640 ribonuclease R; Region: RNase_R; TIGR02063 441772000641 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 441772000642 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 441772000643 RNB domain; Region: RNB; pfam00773 441772000644 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...; Region: S1_RNase_R; cd04471 441772000645 RNA binding site [nucleotide binding]; other site 441772000646 stationary phase survival protein SurE; Provisional; Region: PRK13933 441772000647 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 441772000648 SmpB-tmRNA interface; other site 441772000649 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 441772000650 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 441772000651 MepB protein; Region: MepB; pfam08877 441772000652 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 441772000653 FAD binding domain; Region: FAD_binding_4; pfam01565 441772000654 Berberine and berberine like; Region: BBE; pfam08031 441772000655 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772000656 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 441772000657 S-adenosylmethionine binding site [chemical binding]; other site 441772000658 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772000659 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 441772000660 ligand binding site [chemical binding]; other site 441772000661 flexible hinge region; other site 441772000662 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; cl17320 441772000663 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 441772000664 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772000665 catalytic residue [active] 441772000666 flagellin; Provisional; Region: PRK12804 441772000667 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772000668 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772000669 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 441772000670 active site 441772000671 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 441772000672 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000673 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 441772000674 active site 441772000675 phosphorylation site [posttranslational modification] 441772000676 intermolecular recognition site; other site 441772000677 dimerization interface [polypeptide binding]; other site 441772000678 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 441772000679 DNA binding site [nucleotide binding] 441772000680 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000681 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 441772000682 ATP binding site [chemical binding]; other site 441772000683 Mg2+ binding site [ion binding]; other site 441772000684 G-X-G motif; other site 441772000685 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000686 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772000687 Walker A/P-loop; other site 441772000688 ATP binding site [chemical binding]; other site 441772000689 Q-loop/lid; other site 441772000690 ABC transporter signature motif; other site 441772000691 Walker B; other site 441772000692 D-loop; other site 441772000693 H-loop/switch region; other site 441772000694 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772000695 FtsX-like permease family; Region: FtsX; pfam02687 441772000696 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 441772000697 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 441772000698 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 441772000699 Malic enzyme, N-terminal domain; Region: malic; pfam00390 441772000700 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 441772000701 putative NAD(P) binding site [chemical binding]; other site 441772000702 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 441772000703 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 441772000704 PAS domain; Region: PAS; smart00091 441772000705 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 441772000706 ATP binding site [chemical binding]; other site 441772000707 Mg2+ binding site [ion binding]; other site 441772000708 G-X-G motif; other site 441772000709 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 441772000710 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 441772000711 active site 441772000712 phosphorylation site [posttranslational modification] 441772000713 intermolecular recognition site; other site 441772000714 dimerization interface [polypeptide binding]; other site 441772000715 HTH domain; Region: HTH_11; cl17392 441772000716 lysine transporter; Provisional; Region: PRK10836 441772000717 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772000718 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 441772000719 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 441772000720 trimer interface [polypeptide binding]; other site 441772000721 active site 441772000722 substrate binding site [chemical binding]; other site 441772000723 CoA binding site [chemical binding]; other site 441772000724 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772000725 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 441772000726 active site 441772000727 catalytic motif [active] 441772000728 Zn binding site [ion binding]; other site 441772000729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772000730 Coenzyme A binding pocket [chemical binding]; other site 441772000731 RibD C-terminal domain; Region: RibD_C; cl17279 441772000732 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 441772000733 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 441772000734 active site 441772000735 catalytic site [active] 441772000736 substrate binding site [chemical binding]; other site 441772000737 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 441772000738 Dimer interface [polypeptide binding]; other site 441772000739 Isochorismatase family; Region: Isochorismatase; pfam00857 441772000740 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 441772000741 catalytic triad [active] 441772000742 conserved cis-peptide bond; other site 441772000743 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 441772000744 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 441772000745 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772000746 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 441772000747 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 441772000748 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772000749 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 441772000750 catalytic loop [active] 441772000751 iron binding site [ion binding]; other site 441772000752 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772000753 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 441772000754 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 441772000755 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 441772000756 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 441772000757 catalytic residues [active] 441772000758 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 441772000759 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 441772000760 active site 441772000761 phosphorylation site [posttranslational modification] 441772000762 intermolecular recognition site; other site 441772000763 dimerization interface [polypeptide binding]; other site 441772000764 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 441772000765 DNA binding site [nucleotide binding] 441772000766 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000767 HAMP domain; Region: HAMP; pfam00672 441772000768 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 441772000769 dimer interface [polypeptide binding]; other site 441772000770 phosphorylation site [posttranslational modification] 441772000771 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 441772000772 ATP binding site [chemical binding]; other site 441772000773 Mg2+ binding site [ion binding]; other site 441772000774 G-X-G motif; other site 441772000775 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 441772000776 FAD binding domain; Region: FAD_binding_4; pfam01565 441772000777 Berberine and berberine like; Region: BBE; pfam08031 441772000778 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000779 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000780 NAD binding site [chemical binding]; other site 441772000781 sugar binding site [chemical binding]; other site 441772000782 divalent metal binding site [ion binding]; other site 441772000783 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000784 dimer interface [polypeptide binding]; other site 441772000785 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 441772000786 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772000787 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 441772000788 active site turn [active] 441772000789 phosphorylation site [posttranslational modification] 441772000790 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000791 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000792 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 441772000793 putative active site [active] 441772000794 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000795 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000796 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 441772000797 putative active site [active] 441772000798 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772000799 HPr interaction site; other site 441772000800 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000801 active site 441772000802 phosphorylation site [posttranslational modification] 441772000803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000804 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 441772000805 active site 441772000806 phosphorylation site [posttranslational modification] 441772000807 intermolecular recognition site; other site 441772000808 dimerization interface [polypeptide binding]; other site 441772000809 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 441772000810 DNA binding site [nucleotide binding] 441772000811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000812 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 441772000813 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 441772000814 ATP binding site [chemical binding]; other site 441772000815 Mg2+ binding site [ion binding]; other site 441772000816 G-X-G motif; other site 441772000817 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772000818 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772000819 Walker A/P-loop; other site 441772000820 ATP binding site [chemical binding]; other site 441772000821 Q-loop/lid; other site 441772000822 ABC transporter signature motif; other site 441772000823 Walker B; other site 441772000824 D-loop; other site 441772000825 H-loop/switch region; other site 441772000826 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 441772000827 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772000828 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 441772000829 active site turn [active] 441772000830 phosphorylation site [posttranslational modification] 441772000831 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000832 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000833 NAD binding site [chemical binding]; other site 441772000834 sugar binding site [chemical binding]; other site 441772000835 divalent metal binding site [ion binding]; other site 441772000836 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000837 dimer interface [polypeptide binding]; other site 441772000838 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772000839 HPr interaction site; other site 441772000840 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000841 active site 441772000842 phosphorylation site [posttranslational modification] 441772000843 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000844 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 441772000845 putative active site [active] 441772000846 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...; Region: CSP_CDS; cd04458 441772000847 DNA-binding site [nucleotide binding]; DNA binding site 441772000848 RNA-binding motif; other site 441772000849 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 441772000850 Predicted transcriptional regulator [Transcription]; Region: COG1959 441772000851 Transcriptional regulator; Region: Rrf2; pfam02082 441772000852 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 441772000853 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 441772000854 catalytic residues [active] 441772000855 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 441772000856 NADH(P)-binding; Region: NAD_binding_10; pfam13460 441772000857 NAD binding site [chemical binding]; other site 441772000858 substrate binding site [chemical binding]; other site 441772000859 putative active site [active] 441772000860 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772000861 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772000862 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 441772000863 putative active site [active] 441772000864 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 441772000865 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772000866 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 441772000867 active site turn [active] 441772000868 phosphorylation site [posttranslational modification] 441772000869 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772000870 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 441772000871 NAD binding site [chemical binding]; other site 441772000872 sugar binding site [chemical binding]; other site 441772000873 divalent metal binding site [ion binding]; other site 441772000874 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772000875 dimer interface [polypeptide binding]; other site 441772000876 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772000877 HPr interaction site; other site 441772000878 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772000879 active site 441772000880 phosphorylation site [posttranslational modification] 441772000881 Dehydratase family; Region: ILVD_EDD; pfam00920 441772000882 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 441772000883 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 441772000884 active site 441772000885 intersubunit interface [polypeptide binding]; other site 441772000886 catalytic residue [active] 441772000887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772000888 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 441772000889 substrate binding site [chemical binding]; other site 441772000890 ATP binding site [chemical binding]; other site 441772000891 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 441772000892 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 441772000893 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 441772000894 active site 441772000895 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 441772000896 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000897 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 441772000898 active site 441772000899 phosphorylation site [posttranslational modification] 441772000900 intermolecular recognition site; other site 441772000901 dimerization interface [polypeptide binding]; other site 441772000902 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 441772000903 DNA binding site [nucleotide binding] 441772000904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000905 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 441772000906 dimerization interface [polypeptide binding]; other site 441772000907 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 441772000908 dimer interface [polypeptide binding]; other site 441772000909 phosphorylation site [posttranslational modification] 441772000910 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 441772000911 ATP binding site [chemical binding]; other site 441772000912 Mg2+ binding site [ion binding]; other site 441772000913 G-X-G motif; other site 441772000914 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 441772000915 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 441772000916 Ligand binding site; other site 441772000917 Putative Catalytic site; other site 441772000918 DXD motif; other site 441772000919 Predicted membrane protein [Function unknown]; Region: COG2246 441772000920 GtrA-like protein; Region: GtrA; pfam04138 441772000921 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 441772000922 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 441772000923 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772000924 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772000925 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772000926 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 441772000927 intersubunit interface [polypeptide binding]; other site 441772000928 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772000929 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 441772000930 ABC-ATPase subunit interface; other site 441772000931 dimer interface [polypeptide binding]; other site 441772000932 putative PBP binding regions; other site 441772000933 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772000934 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772000935 Walker A/P-loop; other site 441772000936 ATP binding site [chemical binding]; other site 441772000937 Q-loop/lid; other site 441772000938 ABC transporter signature motif; other site 441772000939 Walker B; other site 441772000940 D-loop; other site 441772000941 H-loop/switch region; other site 441772000942 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772000943 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 441772000944 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772000945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772000946 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 441772000947 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 441772000948 intersubunit interface [polypeptide binding]; other site 441772000949 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772000950 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 441772000951 intersubunit interface [polypeptide binding]; other site 441772000952 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772000953 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 441772000954 ABC-ATPase subunit interface; other site 441772000955 dimer interface [polypeptide binding]; other site 441772000956 putative PBP binding regions; other site 441772000957 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772000958 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 441772000959 ABC-ATPase subunit interface; other site 441772000960 dimer interface [polypeptide binding]; other site 441772000961 putative PBP binding regions; other site 441772000962 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772000963 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772000964 Walker A/P-loop; other site 441772000965 ATP binding site [chemical binding]; other site 441772000966 Q-loop/lid; other site 441772000967 ABC transporter signature motif; other site 441772000968 Walker B; other site 441772000969 D-loop; other site 441772000970 H-loop/switch region; other site 441772000971 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772000972 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772000973 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 441772000974 Walker A/P-loop; other site 441772000975 ATP binding site [chemical binding]; other site 441772000976 Q-loop/lid; other site 441772000977 ABC transporter signature motif; other site 441772000978 Walker B; other site 441772000979 D-loop; other site 441772000980 H-loop/switch region; other site 441772000981 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 441772000982 xanthine permease; Region: pbuX; TIGR03173 441772000983 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772000984 active site 441772000985 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772000986 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 441772000987 active site 441772000988 phosphorylation site [posttranslational modification] 441772000989 intermolecular recognition site; other site 441772000990 dimerization interface [polypeptide binding]; other site 441772000991 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 441772000992 DNA binding site [nucleotide binding] 441772000993 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772000994 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 441772000995 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 441772000996 ATP binding site [chemical binding]; other site 441772000997 Mg2+ binding site [ion binding]; other site 441772000998 G-X-G motif; other site 441772000999 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 441772001000 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772001001 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772001002 Walker A/P-loop; other site 441772001003 ATP binding site [chemical binding]; other site 441772001004 Q-loop/lid; other site 441772001005 ABC transporter signature motif; other site 441772001006 Walker B; other site 441772001007 D-loop; other site 441772001008 H-loop/switch region; other site 441772001009 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772001010 FtsX-like permease family; Region: FtsX; pfam02687 441772001011 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 441772001012 active site 441772001013 NTP binding site [chemical binding]; other site 441772001014 metal binding triad [ion binding]; metal-binding site 441772001015 antibiotic binding site [chemical binding]; other site 441772001016 Protein of unknown function DUF86; Region: DUF86; pfam01934 441772001017 LrgA family; Region: LrgA; pfam03788 441772001018 LrgB-like family; Region: LrgB; pfam04172 441772001019 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 441772001020 Radical SAM superfamily; Region: Radical_SAM; pfam04055 441772001021 FeS/SAM binding site; other site 441772001022 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 441772001023 hypothetical protein; Provisional; Region: PRK13663 441772001024 Accessory gene regulator B; Region: AgrB; pfam04647 441772001025 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 441772001026 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 441772001027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772001028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772001029 metal binding site [ion binding]; metal-binding site 441772001030 active site 441772001031 I-site; other site 441772001032 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 441772001033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772001034 Zn2+ binding site [ion binding]; other site 441772001035 Mg2+ binding site [ion binding]; other site 441772001036 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772001037 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772001038 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 441772001039 PAS domain S-box; Region: sensory_box; TIGR00229 441772001040 PAS domain; Region: PAS; smart00091 441772001041 putative active site [active] 441772001042 heme pocket [chemical binding]; other site 441772001043 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001044 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 441772001045 dimer interface [polypeptide binding]; other site 441772001046 phosphorylation site [posttranslational modification] 441772001047 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 441772001048 ATP binding site [chemical binding]; other site 441772001049 Mg2+ binding site [ion binding]; other site 441772001050 G-X-G motif; other site 441772001051 Accessory gene regulator B; Region: AgrB; pfam04647 441772001052 cyclic lactone autoinducer peptide; Region: quorum_AgrD; TIGR04223 441772001053 PAS domain S-box; Region: sensory_box; TIGR00229 441772001054 PAS domain; Region: PAS_8; pfam13188 441772001055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001056 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 441772001057 dimer interface [polypeptide binding]; other site 441772001058 phosphorylation site [posttranslational modification] 441772001059 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 441772001060 ATP binding site [chemical binding]; other site 441772001061 Mg2+ binding site [ion binding]; other site 441772001062 G-X-G motif; other site 441772001063 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772001064 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772001065 Ligand Binding Site [chemical binding]; other site 441772001066 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 441772001067 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 441772001068 non-specific DNA binding site [nucleotide binding]; other site 441772001069 salt bridge; other site 441772001070 sequence-specific DNA binding site [nucleotide binding]; other site 441772001071 Cupin domain; Region: Cupin_2; pfam07883 441772001072 Amino acid permease; Region: AA_permease_2; pfam13520 441772001073 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772001074 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772001075 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 441772001076 active site 441772001077 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 441772001078 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772001079 putative catalytic cysteine [active] 441772001080 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 441772001081 putative active site [active] 441772001082 metal binding site [ion binding]; metal-binding site 441772001083 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 441772001084 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 441772001085 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 441772001086 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 441772001087 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 441772001088 active site 441772001089 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772001090 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772001091 NodB motif; other site 441772001092 active site 441772001093 catalytic site [active] 441772001094 Zn binding site [ion binding]; other site 441772001095 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001096 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 441772001097 active site 441772001098 phosphorylation site [posttranslational modification] 441772001099 intermolecular recognition site; other site 441772001100 dimerization interface [polypeptide binding]; other site 441772001101 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 441772001102 DNA binding site [nucleotide binding] 441772001103 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001104 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 441772001105 dimerization interface [polypeptide binding]; other site 441772001106 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 441772001107 dimer interface [polypeptide binding]; other site 441772001108 phosphorylation site [posttranslational modification] 441772001109 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 441772001110 ATP binding site [chemical binding]; other site 441772001111 Mg2+ binding site [ion binding]; other site 441772001112 G-X-G motif; other site 441772001113 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 441772001114 S-adenosylmethionine binding site [chemical binding]; other site 441772001115 Uncharacterized conserved protein [Function unknown]; Region: COG0398 441772001116 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 441772001117 CHASE4 domain; Region: CHASE4; pfam05228 441772001118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772001119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772001120 metal binding site [ion binding]; metal-binding site 441772001121 active site 441772001122 I-site; other site 441772001123 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 441772001124 Putative amidase domain; Region: Amidase_6; pfam12671 441772001125 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772001126 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 441772001127 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 441772001128 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 441772001129 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772001130 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 441772001131 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 441772001132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772001133 catalytic residue [active] 441772001134 Predicted membrane protein [Function unknown]; Region: COG2855 441772001135 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 441772001136 active site 441772001137 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001138 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 441772001139 active site 441772001140 phosphorylation site [posttranslational modification] 441772001141 intermolecular recognition site; other site 441772001142 dimerization interface [polypeptide binding]; other site 441772001143 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 441772001144 DNA binding site [nucleotide binding] 441772001145 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001146 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 441772001147 dimerization interface [polypeptide binding]; other site 441772001148 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 441772001149 dimer interface [polypeptide binding]; other site 441772001150 phosphorylation site [posttranslational modification] 441772001151 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 441772001152 ATP binding site [chemical binding]; other site 441772001153 Mg2+ binding site [ion binding]; other site 441772001154 G-X-G motif; other site 441772001155 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 441772001156 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 441772001157 Na binding site [ion binding]; other site 441772001158 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 441772001159 SLBB domain; Region: SLBB; pfam10531 441772001160 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 441772001161 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 441772001162 FMN-binding domain; Region: FMN_bind; cl01081 441772001163 electron transport complex RsxE subunit; Provisional; Region: PRK12405 441772001164 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 441772001165 CheD chemotactic sensory transduction; Region: CheD; cl00810 441772001166 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772001167 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 441772001168 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772001169 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001170 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001171 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001172 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 441772001173 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 441772001174 trimer interface [polypeptide binding]; other site 441772001175 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 441772001176 ApbE family; Region: ApbE; pfam02424 441772001177 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001178 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001179 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001180 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001181 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001182 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001183 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001184 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001185 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001186 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001187 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001188 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001189 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001190 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001191 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 441772001192 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001193 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001194 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001195 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 441772001196 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 441772001197 Acyltransferase family; Region: Acyl_transf_3; pfam01757 441772001198 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 441772001199 Bacterial Ig-like domain; Region: Big_5; pfam13205 441772001200 PBP superfamily domain; Region: PBP_like_2; cl17296 441772001201 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 441772001202 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 441772001203 dimer interface [polypeptide binding]; other site 441772001204 conserved gate region; other site 441772001205 putative PBP binding loops; other site 441772001206 ABC-ATPase subunit interface; other site 441772001207 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 441772001208 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 441772001209 dimer interface [polypeptide binding]; other site 441772001210 conserved gate region; other site 441772001211 putative PBP binding loops; other site 441772001212 ABC-ATPase subunit interface; other site 441772001213 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 441772001214 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 441772001215 Walker A/P-loop; other site 441772001216 ATP binding site [chemical binding]; other site 441772001217 Q-loop/lid; other site 441772001218 ABC transporter signature motif; other site 441772001219 Walker B; other site 441772001220 D-loop; other site 441772001221 H-loop/switch region; other site 441772001222 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772001223 amino acid transporter; Region: 2A0306; TIGR00909 441772001224 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 441772001225 Protein of unknown function DUF45; Region: DUF45; pfam01863 441772001226 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 441772001227 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 441772001228 dimer interface [polypeptide binding]; other site 441772001229 ssDNA binding site [nucleotide binding]; other site 441772001230 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772001231 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772001232 metal binding site 2 [ion binding]; metal-binding site 441772001233 putative DNA binding helix; other site 441772001234 metal binding site 1 [ion binding]; metal-binding site 441772001235 dimer interface [polypeptide binding]; other site 441772001236 structural Zn2+ binding site [ion binding]; other site 441772001237 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 441772001238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772001239 Zn2+ binding site [ion binding]; other site 441772001240 Mg2+ binding site [ion binding]; other site 441772001241 Rhomboid family; Region: Rhomboid; pfam01694 441772001242 Cache domain; Region: Cache_1; pfam02743 441772001243 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 441772001244 dimerization interface [polypeptide binding]; other site 441772001245 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772001246 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001247 dimer interface [polypeptide binding]; other site 441772001248 putative CheW interface [polypeptide binding]; other site 441772001249 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 441772001250 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 441772001251 Walker A motif; other site 441772001252 ATP binding site [chemical binding]; other site 441772001253 Walker B motif; other site 441772001254 arginine finger; other site 441772001255 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772001256 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 441772001257 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 441772001258 RNA/DNA hybrid binding site [nucleotide binding]; other site 441772001259 active site 441772001260 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772001261 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 441772001262 non-specific DNA binding site [nucleotide binding]; other site 441772001263 salt bridge; other site 441772001264 sequence-specific DNA binding site [nucleotide binding]; other site 441772001265 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001266 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 441772001267 binding surface 441772001268 TPR motif; other site 441772001269 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001270 Helix-turn-helix domain; Region: HTH_19; pfam12844 441772001271 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772001272 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772001273 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 441772001274 conserved cys residue [active] 441772001275 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 441772001276 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 441772001277 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 441772001278 Clp amino terminal domain; Region: Clp_N; pfam02861 441772001279 Clp amino terminal domain; Region: Clp_N; pfam02861 441772001280 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 441772001281 Walker A motif; other site 441772001282 ATP binding site [chemical binding]; other site 441772001283 Walker B motif; other site 441772001284 arginine finger; other site 441772001285 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 441772001286 Walker A motif; other site 441772001287 ATP binding site [chemical binding]; other site 441772001288 Walker B motif; other site 441772001289 arginine finger; other site 441772001290 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 441772001291 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 441772001292 catalytic triad [active] 441772001293 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 441772001294 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772001295 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 441772001296 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 441772001297 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 441772001298 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 441772001299 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 441772001300 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 441772001301 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 441772001302 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 441772001303 putative acyl-acceptor binding pocket; other site 441772001304 isopropylmalate/citramalate/homocitrate synthases; Region: LEU1_arch; TIGR02090 441772001305 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 441772001306 active site 441772001307 catalytic residues [active] 441772001308 metal binding site [ion binding]; metal-binding site 441772001309 aconitate hydratase; Validated; Region: PRK07229 441772001310 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 441772001311 substrate binding site [chemical binding]; other site 441772001312 ligand binding site [chemical binding]; other site 441772001313 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 441772001314 substrate binding site [chemical binding]; other site 441772001315 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 441772001316 tartrate dehydrogenase; Region: TTC; TIGR02089 441772001317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772001318 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 441772001319 Walker A/P-loop; other site 441772001320 ATP binding site [chemical binding]; other site 441772001321 Q-loop/lid; other site 441772001322 ABC transporter signature motif; other site 441772001323 Walker B; other site 441772001324 D-loop; other site 441772001325 H-loop/switch region; other site 441772001326 Permease; Region: Permease; cl00510 441772001327 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 441772001328 Uncharacterized conserved protein [Function unknown]; Region: COG2155 441772001329 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 441772001330 tetramerization interface [polypeptide binding]; other site 441772001331 active site 441772001332 Pantoate-beta-alanine ligase; Region: PanC; cd00560 441772001333 pantoate--beta-alanine ligase; Region: panC; TIGR00018 441772001334 active site 441772001335 ATP-binding site [chemical binding]; other site 441772001336 pantoate-binding site; other site 441772001337 HXXH motif; other site 441772001338 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 441772001339 oligomerization interface [polypeptide binding]; other site 441772001340 active site 441772001341 metal binding site [ion binding]; metal-binding site 441772001342 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 441772001343 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 441772001344 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 441772001345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772001346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772001347 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772001348 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 441772001349 4Fe-4S binding domain; Region: Fer4; pfam00037 441772001350 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 441772001351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772001352 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 441772001353 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 441772001354 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 441772001355 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 441772001356 Family description; Region: UvrD_C_2; pfam13538 441772001357 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 441772001358 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772001359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001360 dimer interface [polypeptide binding]; other site 441772001361 putative CheW interface [polypeptide binding]; other site 441772001362 peptidase T; Region: peptidase-T; TIGR01882 441772001363 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 441772001364 metal binding site [ion binding]; metal-binding site 441772001365 dimer interface [polypeptide binding]; other site 441772001366 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 441772001367 active site 441772001368 nucleophile elbow; other site 441772001369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772001370 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_23; cd09011 441772001371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772001372 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001373 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001374 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772001375 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772001376 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 441772001377 dimer interface [polypeptide binding]; other site 441772001378 conserved gate region; other site 441772001379 putative PBP binding loops; other site 441772001380 ABC-ATPase subunit interface; other site 441772001381 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772001382 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 441772001383 substrate binding pocket [chemical binding]; other site 441772001384 membrane-bound complex binding site; other site 441772001385 hinge residues; other site 441772001386 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 441772001387 S-adenosylmethionine binding site [chemical binding]; other site 441772001388 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 441772001389 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 441772001390 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 441772001391 thiamine phosphate binding site [chemical binding]; other site 441772001392 active site 441772001393 pyrophosphate binding site [ion binding]; other site 441772001394 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 441772001395 substrate binding site [chemical binding]; other site 441772001396 multimerization interface [polypeptide binding]; other site 441772001397 ATP binding site [chemical binding]; other site 441772001398 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 441772001399 dimer interface [polypeptide binding]; other site 441772001400 substrate binding site [chemical binding]; other site 441772001401 ATP binding site [chemical binding]; other site 441772001402 Germination protease; Region: Peptidase_A25; cl04057 441772001403 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 441772001404 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 441772001405 ATP-grasp domain; Region: ATP-grasp_4; cl17255 441772001406 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 441772001407 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 441772001408 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 441772001409 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 441772001410 TM-ABC transporter signature motif; other site 441772001411 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 441772001412 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 441772001413 TM-ABC transporter signature motif; other site 441772001414 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 441772001415 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 441772001416 Walker A/P-loop; other site 441772001417 ATP binding site [chemical binding]; other site 441772001418 Q-loop/lid; other site 441772001419 ABC transporter signature motif; other site 441772001420 Walker B; other site 441772001421 D-loop; other site 441772001422 H-loop/switch region; other site 441772001423 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 441772001424 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 441772001425 Walker A/P-loop; other site 441772001426 ATP binding site [chemical binding]; other site 441772001427 Q-loop/lid; other site 441772001428 ABC transporter signature motif; other site 441772001429 Walker B; other site 441772001430 D-loop; other site 441772001431 H-loop/switch region; other site 441772001432 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 441772001433 Uncharacterized conserved protein [Function unknown]; Region: COG2966 441772001434 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 441772001435 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 441772001436 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 441772001437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001438 DNA-binding site [nucleotide binding]; DNA binding site 441772001439 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 441772001440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772001441 homodimer interface [polypeptide binding]; other site 441772001442 catalytic residue [active] 441772001443 LemA family; Region: LemA; pfam04011 441772001444 Repair protein; Region: Repair_PSII; pfam04536 441772001445 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 441772001446 nudix motif; other site 441772001447 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772001448 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; cl17173 441772001449 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 441772001450 S-adenosylmethionine binding site [chemical binding]; other site 441772001451 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 441772001452 salt bridge; other site 441772001453 non-specific DNA binding site [nucleotide binding]; other site 441772001454 sequence-specific DNA binding site [nucleotide binding]; other site 441772001455 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 441772001456 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 441772001457 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 441772001458 active site 441772001459 metal binding site [ion binding]; metal-binding site 441772001460 DNA binding site [nucleotide binding] 441772001461 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 441772001462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001463 AAA domain; Region: AAA_23; pfam13476 441772001464 Walker A/P-loop; other site 441772001465 ATP binding site [chemical binding]; other site 441772001466 Q-loop/lid; other site 441772001467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001468 ABC transporter signature motif; other site 441772001469 Walker B; other site 441772001470 D-loop; other site 441772001471 H-loop/switch region; other site 441772001472 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 441772001473 ADP-ribose binding site [chemical binding]; other site 441772001474 dimer interface [polypeptide binding]; other site 441772001475 active site 441772001476 nudix motif; other site 441772001477 metal binding site [ion binding]; metal-binding site 441772001478 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772001479 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772001480 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772001481 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 441772001482 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 441772001483 dimerization interface [polypeptide binding]; other site 441772001484 putative DNA binding site [nucleotide binding]; other site 441772001485 putative Zn2+ binding site [ion binding]; other site 441772001486 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772001487 Heavy-metal-associated domain; Region: HMA; pfam00403 441772001488 metal-binding site [ion binding] 441772001489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772001490 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772001491 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 441772001492 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 441772001493 putative active site [active] 441772001494 PhoH-like protein; Region: PhoH; pfam02562 441772001495 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 441772001496 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 441772001497 NADPH bind site [chemical binding]; other site 441772001498 putative FMN binding site [chemical binding]; other site 441772001499 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 441772001500 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 441772001501 YcaO-like family; Region: YcaO; pfam02624 441772001502 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 441772001503 CAAX protease self-immunity; Region: Abi; pfam02517 441772001504 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772001505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001506 Walker A/P-loop; other site 441772001507 ATP binding site [chemical binding]; other site 441772001508 Q-loop/lid; other site 441772001509 ABC transporter signature motif; other site 441772001510 Walker B; other site 441772001511 D-loop; other site 441772001512 H-loop/switch region; other site 441772001513 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772001514 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 441772001515 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 441772001516 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 441772001517 ABC-2 type transporter; Region: ABC2_membrane; cl17235 441772001518 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 441772001519 Peptidase family M50; Region: Peptidase_M50; pfam02163 441772001520 active site 441772001521 putative substrate binding region [chemical binding]; other site 441772001522 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 441772001523 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 441772001524 transmembrane helices; other site 441772001525 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 441772001526 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 441772001527 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 441772001528 dimer interface [polypeptide binding]; other site 441772001529 catalytic triad [active] 441772001530 peroxidatic and resolving cysteines [active] 441772001531 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 441772001532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772001533 NAD(P) binding site [chemical binding]; other site 441772001534 active site 441772001535 Response regulator receiver domain; Region: Response_reg; pfam00072 441772001536 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 441772001537 active site 441772001538 phosphorylation site [posttranslational modification] 441772001539 intermolecular recognition site; other site 441772001540 dimerization interface [polypeptide binding]; other site 441772001541 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 441772001542 CHAP domain; Region: CHAP; pfam05257 441772001543 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772001544 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772001545 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 441772001546 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772001547 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 441772001548 NlpC/P60 family; Region: NLPC_P60; pfam00877 441772001549 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 441772001550 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 441772001551 PAS fold; Region: PAS_4; pfam08448 441772001552 Response regulator receiver domain; Region: Response_reg; pfam00072 441772001553 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 441772001554 active site 441772001555 phosphorylation site [posttranslational modification] 441772001556 intermolecular recognition site; other site 441772001557 dimerization interface [polypeptide binding]; other site 441772001558 Hpt domain; Region: Hpt; pfam01627 441772001559 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772001560 Zn2+ binding site [ion binding]; other site 441772001561 Mg2+ binding site [ion binding]; other site 441772001562 Cache domain; Region: Cache_1; pfam02743 441772001563 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772001564 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 441772001565 dimerization interface [polypeptide binding]; other site 441772001566 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001567 dimer interface [polypeptide binding]; other site 441772001568 putative CheW interface [polypeptide binding]; other site 441772001569 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 441772001570 active site 441772001571 phosphorylation site [posttranslational modification] 441772001572 intermolecular recognition site; other site 441772001573 dimerization interface [polypeptide binding]; other site 441772001574 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 441772001575 seryl-tRNA synthetase; Provisional; Region: PRK05431 441772001576 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 441772001577 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...; Region: class_II_aaRS-like_core; cl00268 441772001578 motif 1; other site 441772001579 dimer interface [polypeptide binding]; other site 441772001580 active site 441772001581 motif 2; other site 441772001582 motif 3; other site 441772001583 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; cl17251 441772001584 DEAD_2; Region: DEAD_2; pfam06733 441772001585 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 441772001586 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 441772001587 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772001588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001589 DNA-binding site [nucleotide binding]; DNA binding site 441772001590 TrkA-C domain; Region: TrkA_C; pfam02080 441772001591 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 441772001592 putative active site [active] 441772001593 putative ligand binding site [chemical binding]; other site 441772001594 putative NAD(P) binding site [chemical binding]; other site 441772001595 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 441772001596 Hemerythrin; Region: Hemerythrin; cd12107 441772001597 Fe binding site [ion binding]; other site 441772001598 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 441772001599 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 441772001600 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 441772001601 Amino acid permease; Region: AA_permease_2; pfam13520 441772001602 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 441772001603 AsnC family; Region: AsnC_trans_reg; pfam01037 441772001604 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 441772001605 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 441772001606 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 441772001607 Spore germination protein; Region: Spore_permease; cl17796 441772001608 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 441772001609 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 441772001610 trimer interface [polypeptide binding]; other site 441772001611 putative metal binding site [ion binding]; other site 441772001612 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 441772001613 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772001614 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772001615 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772001616 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772001617 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772001618 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772001619 Chromate transporter; Region: Chromate_transp; pfam02417 441772001620 Chromate transporter; Region: Chromate_transp; pfam02417 441772001621 PemK-like protein; Region: PemK; pfam02452 441772001622 Protein of unknown function (DUF327); Region: DUF327; pfam03885 441772001623 NAD synthetase; Reviewed; Region: nadE; PRK02628 441772001624 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 441772001625 multimer interface [polypeptide binding]; other site 441772001626 active site 441772001627 catalytic triad [active] 441772001628 protein interface 1 [polypeptide binding]; other site 441772001629 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 441772001630 homodimer interface [polypeptide binding]; other site 441772001631 NAD binding pocket [chemical binding]; other site 441772001632 ATP binding pocket [chemical binding]; other site 441772001633 Mg binding site [ion binding]; other site 441772001634 active-site loop [active] 441772001635 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 441772001636 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 441772001637 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 441772001638 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 441772001639 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772001640 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 441772001641 active site 441772001642 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 441772001643 non-specific DNA binding site [nucleotide binding]; other site 441772001644 salt bridge; other site 441772001645 sequence-specific DNA binding site [nucleotide binding]; other site 441772001646 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772001647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001648 Coenzyme A binding pocket [chemical binding]; other site 441772001649 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 441772001650 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 441772001651 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 441772001652 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 441772001653 Carbon starvation protein CstA; Region: CstA; pfam02554 441772001654 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 441772001655 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 441772001656 Cache domain; Region: Cache_1; pfam02743 441772001657 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772001658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772001659 dimer interface [polypeptide binding]; other site 441772001660 putative CheW interface [polypeptide binding]; other site 441772001661 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772001662 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 441772001663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772001664 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 441772001665 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 441772001666 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 441772001667 SEC-C motif; Region: SEC-C; pfam02810 441772001668 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772001669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001670 DNA-binding site [nucleotide binding]; DNA binding site 441772001671 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772001672 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772001673 Walker A/P-loop; other site 441772001674 ATP binding site [chemical binding]; other site 441772001675 Q-loop/lid; other site 441772001676 ABC transporter signature motif; other site 441772001677 Walker B; other site 441772001678 D-loop; other site 441772001679 H-loop/switch region; other site 441772001680 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772001681 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 441772001682 Walker A/P-loop; other site 441772001683 ATP binding site [chemical binding]; other site 441772001684 Q-loop/lid; other site 441772001685 ABC transporter signature motif; other site 441772001686 Walker B; other site 441772001687 D-loop; other site 441772001688 H-loop/switch region; other site 441772001689 TOBE domain; Region: TOBE_2; pfam08402 441772001690 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 441772001691 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 441772001692 dimer interface [polypeptide binding]; other site 441772001693 conserved gate region; other site 441772001694 putative PBP binding loops; other site 441772001695 ABC-ATPase subunit interface; other site 441772001696 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 441772001697 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 441772001698 dimer interface [polypeptide binding]; other site 441772001699 conserved gate region; other site 441772001700 putative PBP binding loops; other site 441772001701 ABC-ATPase subunit interface; other site 441772001702 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 441772001703 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 441772001704 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 441772001705 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772001706 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001707 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 441772001708 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 441772001709 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 441772001710 Short C-terminal domain; Region: SHOCT; pfam09851 441772001711 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772001712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001713 Coenzyme A binding pocket [chemical binding]; other site 441772001714 CAAX protease self-immunity; Region: Abi; pfam02517 441772001715 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 441772001716 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772001717 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 441772001718 non-specific DNA binding site [nucleotide binding]; other site 441772001719 salt bridge; other site 441772001720 sequence-specific DNA binding site [nucleotide binding]; other site 441772001721 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 441772001722 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 441772001723 Catalytic site [active] 441772001724 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772001725 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 441772001726 active site 441772001727 phosphorylation site [posttranslational modification] 441772001728 intermolecular recognition site; other site 441772001729 dimerization interface [polypeptide binding]; other site 441772001730 LytTr DNA-binding domain; Region: LytTR; smart00850 441772001731 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 441772001732 Cys-rich peptide, Clo7bot family; Region: Clo7Bot_mod_Cys; TIGR04333 441772001733 radical SAM/SPASM domain Clo7bot peptide maturase; Region: rSAM_Clo7bot; TIGR04334 441772001734 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 441772001735 FeS/SAM binding site; other site 441772001736 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 441772001737 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 441772001738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001739 Coenzyme A binding pocket [chemical binding]; other site 441772001740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772001741 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772001742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001743 Walker A/P-loop; other site 441772001744 ATP binding site [chemical binding]; other site 441772001745 Q-loop/lid; other site 441772001746 ABC transporter signature motif; other site 441772001747 Walker B; other site 441772001748 D-loop; other site 441772001749 H-loop/switch region; other site 441772001750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 441772001751 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772001752 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 441772001753 FtsX-like permease family; Region: FtsX; pfam02687 441772001754 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772001755 FtsX-like permease family; Region: FtsX; pfam02687 441772001756 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772001757 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772001758 Walker A/P-loop; other site 441772001759 ATP binding site [chemical binding]; other site 441772001760 Q-loop/lid; other site 441772001761 ABC transporter signature motif; other site 441772001762 Walker B; other site 441772001763 D-loop; other site 441772001764 H-loop/switch region; other site 441772001765 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772001766 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001767 Coenzyme A binding pocket [chemical binding]; other site 441772001768 EDD domain protein, DegV family; Region: DegV; TIGR00762 441772001769 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 441772001770 hypothetical protein; Provisional; Region: PRK04164 441772001771 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 441772001772 EamA-like transporter family; Region: EamA; cl17759 441772001773 Sulfatase; Region: Sulfatase; pfam00884 441772001774 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 441772001775 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 441772001776 Walker A motif; other site 441772001777 ATP binding site [chemical binding]; other site 441772001778 Walker B motif; other site 441772001779 arginine finger; other site 441772001780 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772001781 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 441772001782 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 441772001783 Nucleoside recognition; Region: Gate; pfam07670 441772001784 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 441772001785 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 441772001786 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 441772001787 putative dimer interface [polypeptide binding]; other site 441772001788 putative anticodon binding site; other site 441772001789 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 441772001790 homodimer interface [polypeptide binding]; other site 441772001791 motif 1; other site 441772001792 motif 2; other site 441772001793 active site 441772001794 motif 3; other site 441772001795 Predicted transcriptional regulators [Transcription]; Region: COG1695 441772001796 Transcriptional regulator PadR-like family; Region: PadR; cl17335 441772001797 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 441772001798 LytTr DNA-binding domain; Region: LytTR; smart00850 441772001799 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001800 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772001801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 441772001803 CAAX protease self-immunity; Region: Abi; pfam02517 441772001804 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772001805 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 441772001806 non-specific DNA binding site [nucleotide binding]; other site 441772001807 salt bridge; other site 441772001808 sequence-specific DNA binding site [nucleotide binding]; other site 441772001809 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001810 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772001811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001812 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 441772001813 active site 441772001814 phosphorylation site [posttranslational modification] 441772001815 intermolecular recognition site; other site 441772001816 dimerization interface [polypeptide binding]; other site 441772001817 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 441772001818 DNA binding site [nucleotide binding] 441772001819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001820 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 441772001821 dimerization interface [polypeptide binding]; other site 441772001822 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 441772001823 dimer interface [polypeptide binding]; other site 441772001824 phosphorylation site [posttranslational modification] 441772001825 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 441772001826 ATP binding site [chemical binding]; other site 441772001827 Mg2+ binding site [ion binding]; other site 441772001828 G-X-G motif; other site 441772001829 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 441772001830 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 441772001831 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772001832 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 441772001833 active site 441772001834 phosphorylation site [posttranslational modification] 441772001835 intermolecular recognition site; other site 441772001836 dimerization interface [polypeptide binding]; other site 441772001837 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 441772001838 DNA binding site [nucleotide binding] 441772001839 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772001840 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 441772001841 dimer interface [polypeptide binding]; other site 441772001842 phosphorylation site [posttranslational modification] 441772001843 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 441772001844 ATP binding site [chemical binding]; other site 441772001845 Mg2+ binding site [ion binding]; other site 441772001846 G-X-G motif; other site 441772001847 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 441772001848 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 441772001849 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772001850 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 441772001851 active site 441772001852 phosphorylation site [posttranslational modification] 441772001853 intermolecular recognition site; other site 441772001854 dimerization interface [polypeptide binding]; other site 441772001855 YcbB domain; Region: YcbB; pfam08664 441772001856 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 441772001857 ATP binding site [chemical binding]; other site 441772001858 Mg2+ binding site [ion binding]; other site 441772001859 G-X-G motif; other site 441772001860 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 441772001861 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 441772001862 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; cl17173 441772001863 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 441772001864 S-adenosylmethionine binding site [chemical binding]; other site 441772001865 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 441772001866 dimerization interface [polypeptide binding]; other site 441772001867 putative Zn2+ binding site [ion binding]; other site 441772001868 putative DNA binding site [nucleotide binding]; other site 441772001869 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772001870 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772001871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001872 Walker A/P-loop; other site 441772001873 ATP binding site [chemical binding]; other site 441772001874 Q-loop/lid; other site 441772001875 ABC transporter signature motif; other site 441772001876 Walker B; other site 441772001877 D-loop; other site 441772001878 H-loop/switch region; other site 441772001879 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 441772001880 Chloramphenicol acetyltransferase; Region: CAT; smart01059 441772001881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772001882 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772001883 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772001884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772001885 Coenzyme A binding pocket [chemical binding]; other site 441772001886 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 441772001887 dimer interface [polypeptide binding]; other site 441772001888 putative tRNA-binding site [nucleotide binding]; other site 441772001889 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 441772001890 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772001891 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772001892 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 441772001893 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 441772001894 non-specific DNA binding site [nucleotide binding]; other site 441772001895 salt bridge; other site 441772001896 sequence-specific DNA binding site [nucleotide binding]; other site 441772001897 Cupin domain; Region: Cupin_2; pfam07883 441772001898 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 441772001899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001900 Q-loop/lid; other site 441772001901 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772001902 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772001903 Walker A/P-loop; other site 441772001904 ATP binding site [chemical binding]; other site 441772001905 Q-loop/lid; other site 441772001906 ABC transporter signature motif; other site 441772001907 Walker B; other site 441772001908 D-loop; other site 441772001909 H-loop/switch region; other site 441772001910 allantoate amidohydrolase; Reviewed; Region: PRK09290 441772001911 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 441772001912 active site 441772001913 metal binding site [ion binding]; metal-binding site 441772001914 dimer interface [polypeptide binding]; other site 441772001915 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 441772001916 MutS domain III; Region: MutS_III; pfam05192 441772001917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001918 Walker A/P-loop; other site 441772001919 ATP binding site [chemical binding]; other site 441772001920 Q-loop/lid; other site 441772001921 ABC transporter signature motif; other site 441772001922 Walker B; other site 441772001923 D-loop; other site 441772001924 H-loop/switch region; other site 441772001925 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 441772001926 Protein of unknown function (DUF454); Region: DUF454; cl01063 441772001927 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 441772001928 5,10-methenyltetrahydromethanopterin hydrogenase cofactor biosynthesis protein HmdC; Region: monoFe_hyd_HmdC; TIGR03958 441772001929 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 441772001930 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772001931 DNA-binding site [nucleotide binding]; DNA binding site 441772001932 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 441772001933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772001934 homodimer interface [polypeptide binding]; other site 441772001935 catalytic residue [active] 441772001936 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 441772001937 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 441772001938 ATP binding site [chemical binding]; other site 441772001939 Mg++ binding site [ion binding]; other site 441772001940 motif III; other site 441772001941 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 441772001942 nucleotide binding region [chemical binding]; other site 441772001943 ATP-binding site [chemical binding]; other site 441772001944 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 441772001945 diiron binding motif [ion binding]; other site 441772001946 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772001947 MarR family; Region: MarR_2; pfam12802 441772001948 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 441772001949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772001950 putative substrate translocation pore; other site 441772001951 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 441772001952 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 441772001953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772001954 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772001955 Walker A/P-loop; other site 441772001956 ATP binding site [chemical binding]; other site 441772001957 Q-loop/lid; other site 441772001958 ABC transporter signature motif; other site 441772001959 Walker B; other site 441772001960 D-loop; other site 441772001961 H-loop/switch region; other site 441772001962 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 441772001963 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 441772001964 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 441772001965 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 441772001966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772001967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772001968 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 441772001969 dimerization interface [polypeptide binding]; other site 441772001970 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 441772001971 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772001972 CAT RNA binding domain; Region: CAT_RBD; smart01061 441772001973 PRD domain; Region: PRD; pfam00874 441772001974 PRD domain; Region: PRD; pfam00874 441772001975 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772001976 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 441772001977 active site turn [active] 441772001978 phosphorylation site [posttranslational modification] 441772001979 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772001980 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772001981 HPr interaction site; other site 441772001982 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772001983 active site 441772001984 phosphorylation site [posttranslational modification] 441772001985 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772001986 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 441772001987 active site 441772001988 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 441772001989 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772001990 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 441772001991 ligand binding site [chemical binding]; other site 441772001992 flexible hinge region; other site 441772001993 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 441772001994 putative switch regulator; other site 441772001995 non-specific DNA interactions [nucleotide binding]; other site 441772001996 DNA binding site [nucleotide binding] 441772001997 sequence specific DNA binding site [nucleotide binding]; other site 441772001998 putative cAMP binding site [chemical binding]; other site 441772001999 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772002000 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772002001 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772002002 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 441772002003 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 441772002004 Family of unknown function (DUF438); Region: DUF438; pfam04282 441772002005 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 441772002006 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 441772002007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772002008 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 441772002009 TM-ABC transporter signature motif; other site 441772002010 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 441772002011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772002012 Walker A/P-loop; other site 441772002013 ATP binding site [chemical binding]; other site 441772002014 Q-loop/lid; other site 441772002015 ABC transporter signature motif; other site 441772002016 Walker B; other site 441772002017 D-loop; other site 441772002018 H-loop/switch region; other site 441772002019 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 441772002020 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 441772002021 zinc binding site [ion binding]; other site 441772002022 putative ligand binding site [chemical binding]; other site 441772002023 Penicillinase repressor; Region: Pencillinase_R; pfam03965 441772002024 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772002025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772002026 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 441772002027 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 441772002028 FMN binding site [chemical binding]; other site 441772002029 active site 441772002030 catalytic residues [active] 441772002031 substrate binding site [chemical binding]; other site 441772002032 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 441772002033 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 441772002034 Outer spore coat protein E (CotE); Region: CotE; pfam10628 441772002035 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002037 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772002038 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 441772002039 intersubunit interface [polypeptide binding]; other site 441772002040 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772002041 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 441772002042 ABC-ATPase subunit interface; other site 441772002043 dimer interface [polypeptide binding]; other site 441772002044 putative PBP binding regions; other site 441772002045 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772002046 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 441772002047 ABC-ATPase subunit interface; other site 441772002048 dimer interface [polypeptide binding]; other site 441772002049 putative PBP binding regions; other site 441772002050 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772002051 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772002052 Walker A/P-loop; other site 441772002053 ATP binding site [chemical binding]; other site 441772002054 Q-loop/lid; other site 441772002055 ABC transporter signature motif; other site 441772002056 Walker B; other site 441772002057 D-loop; other site 441772002058 H-loop/switch region; other site 441772002059 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772002060 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 441772002061 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 441772002062 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 441772002063 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 441772002064 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 441772002065 Cache domain; Region: Cache_1; pfam02743 441772002066 HAMP domain; Region: HAMP; pfam00672 441772002067 dimerization interface [polypeptide binding]; other site 441772002068 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772002069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772002070 dimer interface [polypeptide binding]; other site 441772002071 putative CheW interface [polypeptide binding]; other site 441772002072 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 441772002073 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 441772002074 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 441772002075 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 441772002076 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 441772002077 glycine cleavage system protein H; Provisional; Region: PRK13380 441772002078 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 441772002079 lipoyl attachment site [posttranslational modification]; other site 441772002080 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 441772002081 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 441772002082 tetramer interface [polypeptide binding]; other site 441772002083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002084 catalytic residue [active] 441772002085 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 441772002086 tetramer interface [polypeptide binding]; other site 441772002087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002088 catalytic residue [active] 441772002089 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 441772002090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772002091 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772002092 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 441772002093 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 441772002094 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 441772002095 Restriction endonuclease; Region: Mrr_cat; pfam04471 441772002096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772002097 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772002098 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772002099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002100 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 441772002101 active site 441772002102 phosphorylation site [posttranslational modification] 441772002103 intermolecular recognition site; other site 441772002104 dimerization interface [polypeptide binding]; other site 441772002105 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 441772002106 DNA binding site [nucleotide binding] 441772002107 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002108 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 441772002109 dimer interface [polypeptide binding]; other site 441772002110 phosphorylation site [posttranslational modification] 441772002111 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 441772002112 ATP binding site [chemical binding]; other site 441772002113 Mg2+ binding site [ion binding]; other site 441772002114 G-X-G motif; other site 441772002115 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002116 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772002117 Walker A/P-loop; other site 441772002118 ATP binding site [chemical binding]; other site 441772002119 Q-loop/lid; other site 441772002120 ABC transporter signature motif; other site 441772002121 Walker B; other site 441772002122 D-loop; other site 441772002123 H-loop/switch region; other site 441772002124 FtsX-like permease family; Region: FtsX; pfam02687 441772002125 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002126 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772002127 FtsX-like permease family; Region: FtsX; pfam02687 441772002128 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772002129 MarR family; Region: MarR; pfam01047 441772002130 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772002131 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772002132 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772002133 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772002134 DNA binding residues [nucleotide binding] 441772002135 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772002136 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002137 DNA binding residues [nucleotide binding] 441772002138 dimer interface [polypeptide binding]; other site 441772002139 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 441772002140 active site 441772002141 myosin-cross-reactive antigen; Provisional; Region: PRK13977 441772002142 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772002143 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772002144 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 441772002145 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772002146 Walker A/P-loop; other site 441772002147 ATP binding site [chemical binding]; other site 441772002148 Q-loop/lid; other site 441772002149 ABC transporter signature motif; other site 441772002150 Walker B; other site 441772002151 D-loop; other site 441772002152 H-loop/switch region; other site 441772002153 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 441772002154 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 441772002155 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772002156 EamA-like transporter family; Region: EamA; pfam00892 441772002157 EamA-like transporter family; Region: EamA; pfam00892 441772002158 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002159 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 441772002160 non-specific DNA binding site [nucleotide binding]; other site 441772002161 salt bridge; other site 441772002162 sequence-specific DNA binding site [nucleotide binding]; other site 441772002163 Cupin domain; Region: Cupin_2; pfam07883 441772002164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002165 Coenzyme A binding pocket [chemical binding]; other site 441772002166 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002167 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002168 TfoX C-terminal domain; Region: TfoX_C; pfam04994 441772002169 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 441772002170 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 441772002171 active site 441772002172 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 441772002173 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772002174 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772002175 dimer interface [polypeptide binding]; other site 441772002176 putative CheW interface [polypeptide binding]; other site 441772002177 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772002178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772002179 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772002180 ABC transporter; Region: ABC_tran_2; pfam12848 441772002181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772002182 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772002183 HTH domain; Region: HTH_11; pfam08279 441772002184 WYL domain; Region: WYL; pfam13280 441772002185 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 441772002186 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 441772002187 conserved cys residue [active] 441772002188 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772002189 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 441772002190 dimer interface [polypeptide binding]; other site 441772002191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002192 catalytic residue [active] 441772002193 S-ribosylhomocysteinase; Provisional; Region: PRK02260 441772002194 cystathionine beta-lyase; Provisional; Region: PRK07671 441772002195 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 441772002196 homodimer interface [polypeptide binding]; other site 441772002197 substrate-cofactor binding pocket; other site 441772002198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002199 catalytic residue [active] 441772002200 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772002201 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 441772002202 S-adenosylmethionine binding site [chemical binding]; other site 441772002203 Glyco_18 domain; Region: Glyco_18; smart00636 441772002204 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 441772002205 active site 441772002206 Chitinase C; Region: ChiC; pfam06483 441772002207 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 441772002208 metal-binding site [ion binding] 441772002209 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 441772002210 Domain of unknown function (DUF955); Region: DUF955; pfam06114 441772002211 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002212 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 441772002213 non-specific DNA binding site [nucleotide binding]; other site 441772002214 salt bridge; other site 441772002215 sequence-specific DNA binding site [nucleotide binding]; other site 441772002216 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 441772002217 non-specific DNA binding site [nucleotide binding]; other site 441772002218 salt bridge; other site 441772002219 sequence-specific DNA binding site [nucleotide binding]; other site 441772002220 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 441772002221 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772002222 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772002223 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; cl17257 441772002224 DNA binding residues [nucleotide binding] 441772002225 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 441772002226 active site 441772002227 metal binding site [ion binding]; metal-binding site 441772002228 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 441772002229 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772002230 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772002231 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 441772002232 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 441772002233 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 441772002234 Low molecular weight phosphatase family; Region: LMWPc; cl00105 441772002235 active site 441772002236 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 441772002237 dimerization interface [polypeptide binding]; other site 441772002238 putative DNA binding site [nucleotide binding]; other site 441772002239 putative Zn2+ binding site [ion binding]; other site 441772002240 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 441772002241 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 441772002242 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 441772002243 P loop; other site 441772002244 Nucleotide binding site [chemical binding]; other site 441772002245 DTAP/Switch II; other site 441772002246 Switch I; other site 441772002247 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 441772002248 P loop; other site 441772002249 Nucleotide binding site [chemical binding]; other site 441772002250 DTAP/Switch II; other site 441772002251 Switch I; other site 441772002252 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 441772002253 arsenical-resistance protein; Region: acr3; TIGR00832 441772002254 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 441772002255 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 441772002256 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 441772002257 dimerization interface [polypeptide binding]; other site 441772002258 putative DNA binding site [nucleotide binding]; other site 441772002259 putative Zn2+ binding site [ion binding]; other site 441772002260 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772002261 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 441772002262 S-adenosylmethionine binding site [chemical binding]; other site 441772002263 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 441772002264 catalytic core [active] 441772002265 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002266 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 441772002267 salt bridge; other site 441772002268 non-specific DNA binding site [nucleotide binding]; other site 441772002269 sequence-specific DNA binding site [nucleotide binding]; other site 441772002270 Low molecular weight phosphatase family; Region: LMWPc; cl00105 441772002271 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002272 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002273 clostridium toxin-associated regulator BotR; Region: P21_Cbot; TIGR03209 441772002274 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; cl17257 441772002275 DNA binding residues [nucleotide binding] 441772002276 Clostridium P-47 protein; Region: Clostridium_P47; pfam06597 441772002277 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 441772002278 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 441772002279 Nontoxic nonhaemagglutinin C-terminal; Region: NTNH_C; pfam08470 441772002280 Clostridial neurotoxin zinc protease; Region: Peptidase_M27; pfam01742 441772002281 Clostridium neurotoxin, Translocation domain; Region: Toxin_trans; pfam07952 441772002282 Clostridium neurotoxin, N-terminal receptor binding; Region: Toxin_R_bind_N; pfam07953 441772002283 Clostridium neurotoxin, C-terminal receptor binding; Region: Toxin_R_bind_C; pfam07951 441772002284 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 441772002285 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 441772002286 active site 441772002287 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 441772002288 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 441772002289 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 441772002290 dimerization interface [polypeptide binding]; other site 441772002291 active site 441772002292 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 441772002293 S-adenosylmethionine binding site [chemical binding]; other site 441772002294 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772002295 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 441772002296 dimer interface [polypeptide binding]; other site 441772002297 substrate binding site [chemical binding]; other site 441772002298 ATP binding site [chemical binding]; other site 441772002299 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 441772002300 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002301 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772002302 Walker A/P-loop; other site 441772002303 ATP binding site [chemical binding]; other site 441772002304 Q-loop/lid; other site 441772002305 ABC transporter signature motif; other site 441772002306 Walker B; other site 441772002307 D-loop; other site 441772002308 H-loop/switch region; other site 441772002309 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002310 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 441772002311 active site 441772002312 phosphorylation site [posttranslational modification] 441772002313 intermolecular recognition site; other site 441772002314 dimerization interface [polypeptide binding]; other site 441772002315 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 441772002316 DNA binding site [nucleotide binding] 441772002317 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772002319 Walker A/P-loop; other site 441772002320 ATP binding site [chemical binding]; other site 441772002321 Q-loop/lid; other site 441772002322 ABC transporter signature motif; other site 441772002323 Walker B; other site 441772002324 D-loop; other site 441772002325 H-loop/switch region; other site 441772002326 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772002327 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772002328 Helix-turn-helix domain; Region: HTH_18; pfam12833 441772002329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002330 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 441772002331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002332 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 441772002333 dimer interface [polypeptide binding]; other site 441772002334 phosphorylation site [posttranslational modification] 441772002335 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 441772002336 ATP binding site [chemical binding]; other site 441772002337 Mg2+ binding site [ion binding]; other site 441772002338 G-X-G motif; other site 441772002339 Protein of unknown function (DUF4003); Region: DUF4003; pfam13170 441772002340 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002341 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772002342 Walker A/P-loop; other site 441772002343 ATP binding site [chemical binding]; other site 441772002344 Q-loop/lid; other site 441772002345 ABC transporter signature motif; other site 441772002346 Walker B; other site 441772002347 D-loop; other site 441772002348 H-loop/switch region; other site 441772002349 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002350 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772002351 FtsX-like permease family; Region: FtsX; pfam02687 441772002352 FtsX-like permease family; Region: FtsX; pfam02687 441772002353 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002354 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 441772002355 active site 441772002356 phosphorylation site [posttranslational modification] 441772002357 intermolecular recognition site; other site 441772002358 dimerization interface [polypeptide binding]; other site 441772002359 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 441772002360 DNA binding site [nucleotide binding] 441772002361 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002362 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 441772002363 dimer interface [polypeptide binding]; other site 441772002364 phosphorylation site [posttranslational modification] 441772002365 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 441772002366 ATP binding site [chemical binding]; other site 441772002367 Mg2+ binding site [ion binding]; other site 441772002368 G-X-G motif; other site 441772002369 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 441772002370 Small acid-soluble spore protein H family; Region: SspH; pfam08141 441772002371 dihydrodipicolinate reductase; Provisional; Region: PRK00048 441772002372 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 441772002373 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 441772002374 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772002375 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 441772002376 active site residue [active] 441772002377 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 441772002378 active site residue [active] 441772002379 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 441772002380 SIR2-like domain; Region: SIR2_2; pfam13289 441772002381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772002382 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 441772002383 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 441772002384 Beta-lactamase; Region: Beta-lactamase; pfam00144 441772002385 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002386 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 441772002387 non-specific DNA binding site [nucleotide binding]; other site 441772002388 salt bridge; other site 441772002389 sequence-specific DNA binding site [nucleotide binding]; other site 441772002390 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 441772002391 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 441772002392 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 441772002393 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 441772002394 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 441772002395 active site 441772002396 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772002397 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772002398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772002399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772002400 dimer interface [polypeptide binding]; other site 441772002401 putative CheW interface [polypeptide binding]; other site 441772002402 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 441772002403 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 441772002404 FeoA domain; Region: FeoA; pfam04023 441772002405 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 441772002406 catalytic core [active] 441772002407 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 441772002408 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772002409 VanW like protein; Region: VanW; pfam04294 441772002410 G5 domain; Region: G5; pfam07501 441772002411 cobalamin synthase; Reviewed; Region: cobS; PRK00235 441772002412 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 441772002413 Coat F domain; Region: Coat_F; pfam07875 441772002414 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 441772002415 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 441772002416 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 441772002417 NodB motif; other site 441772002418 putative active site [active] 441772002419 putative catalytic site [active] 441772002420 putative Zn binding site [ion binding]; other site 441772002421 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 441772002422 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 441772002423 active site 441772002424 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 441772002425 dihydropteroate synthase; Region: DHPS; TIGR01496 441772002426 substrate binding pocket [chemical binding]; other site 441772002427 dimer interface [polypeptide binding]; other site 441772002428 inhibitor binding site; inhibition site 441772002429 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 441772002430 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 441772002431 catalytic center binding site [active] 441772002432 ATP binding site [chemical binding]; other site 441772002433 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 441772002434 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 441772002435 putative dimer interface [polypeptide binding]; other site 441772002436 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002437 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002438 DNA binding residues [nucleotide binding] 441772002439 dimer interface [polypeptide binding]; other site 441772002440 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 441772002441 S-adenosylmethionine binding site [chemical binding]; other site 441772002442 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 441772002443 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 441772002444 inhibitor-cofactor binding pocket; inhibition site 441772002445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002446 catalytic residue [active] 441772002447 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 441772002448 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 441772002449 inhibitor-cofactor binding pocket; inhibition site 441772002450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002451 catalytic residue [active] 441772002452 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 441772002453 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772002454 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 441772002455 DNA binding residues [nucleotide binding] 441772002456 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772002457 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 441772002458 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 441772002459 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 441772002460 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 441772002461 Cadmium resistance transporter; Region: Cad; pfam03596 441772002462 Protein of unknown function (DUF523); Region: DUF523; pfam04463 441772002463 Uncharacterized conserved protein [Function unknown]; Region: COG2128 441772002464 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 441772002465 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 441772002466 putative DNA binding site [nucleotide binding]; other site 441772002467 putative Zn2+ binding site [ion binding]; other site 441772002468 AsnC family; Region: AsnC_trans_reg; pfam01037 441772002469 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 441772002470 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772002471 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002472 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772002473 Walker A/P-loop; other site 441772002474 ATP binding site [chemical binding]; other site 441772002475 Q-loop/lid; other site 441772002476 ABC transporter signature motif; other site 441772002477 Walker B; other site 441772002478 D-loop; other site 441772002479 H-loop/switch region; other site 441772002480 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002481 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 441772002482 non-specific DNA binding site [nucleotide binding]; other site 441772002483 salt bridge; other site 441772002484 sequence-specific DNA binding site [nucleotide binding]; other site 441772002485 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772002486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 441772002487 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772002488 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 441772002489 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772002490 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772002491 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 441772002492 DNA binding residues [nucleotide binding] 441772002493 dimer interface [polypeptide binding]; other site 441772002494 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002495 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772002496 Coenzyme A binding pocket [chemical binding]; other site 441772002497 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 441772002498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002499 Coenzyme A binding pocket [chemical binding]; other site 441772002500 Pirin-related protein [General function prediction only]; Region: COG1741 441772002501 Pirin; Region: Pirin; pfam02678 441772002502 Predicted transcriptional regulators [Transcription]; Region: COG1733 441772002503 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 441772002504 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 441772002505 dimer interface [polypeptide binding]; other site 441772002506 FMN binding site [chemical binding]; other site 441772002507 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 441772002508 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 441772002509 Cupin; Region: Cupin_1; smart00835 441772002510 Cupin; Region: Cupin_1; smart00835 441772002511 TIGR00730 family protein; Region: TIGR00730 441772002512 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772002513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772002514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772002515 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 441772002516 dimerization interface [polypeptide binding]; other site 441772002517 dUMP phosphatase; Provisional; Region: PRK09449 441772002518 dUMP phosphatase; Provisional; Region: PRK09449 441772002519 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772002520 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772002521 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772002522 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 441772002523 ligand binding site [chemical binding]; other site 441772002524 flexible hinge region; other site 441772002525 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 441772002526 putative switch regulator; other site 441772002527 DNA binding site [nucleotide binding] 441772002528 sequence specific DNA binding site [nucleotide binding]; other site 441772002529 putative cAMP binding site [chemical binding]; other site 441772002530 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772002531 HTH domain; Region: HTH_11; pfam08279 441772002532 WYL domain; Region: WYL; pfam13280 441772002533 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 441772002534 Uncharacterized conserved protein [Function unknown]; Region: COG2966 441772002535 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 441772002536 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 441772002537 DNA binding residues [nucleotide binding] 441772002538 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 441772002539 active site 441772002540 catalytic residues [active] 441772002541 metal binding site [ion binding]; metal-binding site 441772002542 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 441772002543 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772002544 DNA-binding site [nucleotide binding]; DNA binding site 441772002545 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 441772002546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002547 homodimer interface [polypeptide binding]; other site 441772002548 catalytic residue [active] 441772002549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002550 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002552 Nitroreductase-like family 3. 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_3; cd02139 441772002553 putative FMN binding site [chemical binding]; other site 441772002554 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 441772002555 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772002556 CAT RNA binding domain; Region: CAT_RBD; smart01061 441772002557 PRD domain; Region: PRD; pfam00874 441772002558 PRD domain; Region: PRD; pfam00874 441772002559 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772002560 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 441772002561 active site turn [active] 441772002562 phosphorylation site [posttranslational modification] 441772002563 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772002564 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772002565 HPr interaction site; other site 441772002566 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772002567 active site 441772002568 phosphorylation site [posttranslational modification] 441772002569 beta-galactosidase; Region: BGL; TIGR03356 441772002570 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 441772002571 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 441772002572 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 441772002573 Mg++ binding site [ion binding]; other site 441772002574 putative catalytic motif [active] 441772002575 putative substrate binding site [chemical binding]; other site 441772002576 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772002577 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 441772002578 non-specific DNA binding site [nucleotide binding]; other site 441772002579 sequence-specific DNA binding site [nucleotide binding]; other site 441772002580 salt bridge; other site 441772002581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002582 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 441772002583 active site 441772002584 phosphorylation site [posttranslational modification] 441772002585 intermolecular recognition site; other site 441772002586 dimerization interface [polypeptide binding]; other site 441772002587 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 441772002588 DNA binding site [nucleotide binding] 441772002589 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002590 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 441772002591 dimer interface [polypeptide binding]; other site 441772002592 phosphorylation site [posttranslational modification] 441772002593 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 441772002594 ATP binding site [chemical binding]; other site 441772002595 Mg2+ binding site [ion binding]; other site 441772002596 G-X-G motif; other site 441772002597 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002598 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772002599 Walker A/P-loop; other site 441772002600 ATP binding site [chemical binding]; other site 441772002601 Q-loop/lid; other site 441772002602 ABC transporter signature motif; other site 441772002603 Walker B; other site 441772002604 D-loop; other site 441772002605 H-loop/switch region; other site 441772002606 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772002607 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772002608 FtsX-like permease family; Region: FtsX; pfam02687 441772002609 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772002610 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772002611 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 441772002612 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 441772002613 FeS/SAM binding site; other site 441772002614 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002615 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002616 DNA binding residues [nucleotide binding] 441772002617 dimer interface [polypeptide binding]; other site 441772002618 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutL; COG4816 441772002619 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 441772002620 putative hexamer interface [polypeptide binding]; other site 441772002621 putative hexagonal pore; other site 441772002622 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 441772002623 putative hexamer interface [polypeptide binding]; other site 441772002624 putative hexagonal pore; other site 441772002625 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 441772002626 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 441772002627 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 441772002628 active site 441772002629 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 441772002630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002631 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002633 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 441772002634 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 441772002635 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 441772002636 Predicted membrane protein [Function unknown]; Region: COG2510 441772002637 Predicted membrane protein [Function unknown]; Region: COG2510 441772002638 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 441772002639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 441772002640 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 441772002641 YmaF family; Region: YmaF; pfam12788 441772002642 Amino acid permease; Region: AA_permease_2; pfam13520 441772002643 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772002644 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772002645 Walker A/P-loop; other site 441772002646 ATP binding site [chemical binding]; other site 441772002647 Q-loop/lid; other site 441772002648 ABC transporter signature motif; other site 441772002649 Walker B; other site 441772002650 D-loop; other site 441772002651 H-loop/switch region; other site 441772002652 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 441772002653 FtsX-like permease family; Region: FtsX; pfam02687 441772002654 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002655 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 441772002656 active site 441772002657 phosphorylation site [posttranslational modification] 441772002658 intermolecular recognition site; other site 441772002659 dimerization interface [polypeptide binding]; other site 441772002660 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 441772002661 DNA binding site [nucleotide binding] 441772002662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772002663 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 441772002664 dimerization interface [polypeptide binding]; other site 441772002665 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 441772002666 dimer interface [polypeptide binding]; other site 441772002667 phosphorylation site [posttranslational modification] 441772002668 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 441772002669 ATP binding site [chemical binding]; other site 441772002670 Mg2+ binding site [ion binding]; other site 441772002671 G-X-G motif; other site 441772002672 BioY family; Region: BioY; pfam02632 441772002673 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 441772002674 Sel1-like repeats; Region: SEL1; smart00671 441772002675 Sel1-like repeats; Region: SEL1; smart00671 441772002676 Sel1-like repeats; Region: SEL1; smart00671 441772002677 Sel1-like repeats; Region: SEL1; smart00671 441772002678 putative acetyltransferase YhhY; Provisional; Region: PRK10140 441772002679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002680 Coenzyme A binding pocket [chemical binding]; other site 441772002681 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 441772002682 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 441772002683 Catalytic site [active] 441772002684 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 441772002685 homotrimer interface [polypeptide binding]; other site 441772002686 Walker A motif; other site 441772002687 GTP binding site [chemical binding]; other site 441772002688 Walker B motif; other site 441772002689 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 441772002690 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002691 DNA binding residues [nucleotide binding] 441772002692 dimer interface [polypeptide binding]; other site 441772002693 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 441772002694 cobyric acid synthase; Provisional; Region: PRK00784 441772002695 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772002696 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772002697 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 441772002698 catalytic triad [active] 441772002699 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 441772002700 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 441772002701 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 441772002702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002703 homodimer interface [polypeptide binding]; other site 441772002704 catalytic residue [active] 441772002705 cobalt transport protein CbiM; Validated; Region: PRK08319 441772002706 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 441772002707 cobalt transport protein CbiN; Provisional; Region: PRK02898 441772002708 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 441772002709 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 441772002710 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 441772002711 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 441772002712 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 441772002713 domain interfaces; other site 441772002714 active site 441772002715 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 441772002716 active site 441772002717 SAM binding site [chemical binding]; other site 441772002718 homodimer interface [polypeptide binding]; other site 441772002719 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 441772002720 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 441772002721 active site 441772002722 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 441772002723 dimer interface [polypeptide binding]; other site 441772002724 active site 441772002725 Schiff base residues; other site 441772002726 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 441772002727 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 441772002728 catalytic triad [active] 441772002729 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772002730 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772002731 maltose O-acetyltransferase; Provisional; Region: PRK10092 441772002732 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 441772002733 active site 441772002734 substrate binding site [chemical binding]; other site 441772002735 trimer interface [polypeptide binding]; other site 441772002736 CoA binding site [chemical binding]; other site 441772002737 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 441772002738 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 441772002739 Predicted ATPase [General function prediction only]; Region: COG3910 441772002740 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 441772002741 Walker A/P-loop; other site 441772002742 ATP binding site [chemical binding]; other site 441772002743 Q-loop/lid; other site 441772002744 ABC transporter signature motif; other site 441772002745 Walker B; other site 441772002746 D-loop; other site 441772002747 H-loop/switch region; other site 441772002748 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772002749 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002750 DNA binding residues [nucleotide binding] 441772002751 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772002752 Coenzyme A binding pocket [chemical binding]; other site 441772002753 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 441772002754 FMN binding site [chemical binding]; other site 441772002755 dimer interface [polypeptide binding]; other site 441772002756 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 441772002757 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 441772002758 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 441772002759 active site 441772002760 putative homodimer interface [polypeptide binding]; other site 441772002761 SAM binding site [chemical binding]; other site 441772002762 SdpI/YhfL protein family; Region: SdpI; pfam13630 441772002763 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 441772002764 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 441772002765 S-adenosylmethionine binding site [chemical binding]; other site 441772002766 hypothetical protein; Provisional; Region: PRK06771 441772002767 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772002768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002769 Coenzyme A binding pocket [chemical binding]; other site 441772002770 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 441772002771 active site 441772002772 SAM binding site [chemical binding]; other site 441772002773 homodimer interface [polypeptide binding]; other site 441772002774 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 441772002775 active site 441772002776 SAM binding site [chemical binding]; other site 441772002777 homodimer interface [polypeptide binding]; other site 441772002778 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 441772002779 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 441772002780 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 441772002781 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 441772002782 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 441772002783 active site 441772002784 SAM binding site [chemical binding]; other site 441772002785 homodimer interface [polypeptide binding]; other site 441772002786 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 441772002787 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 441772002788 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 441772002789 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 441772002790 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 441772002791 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 441772002792 active site 441772002793 C-terminal domain interface [polypeptide binding]; other site 441772002794 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 441772002795 active site 441772002796 N-terminal domain interface [polypeptide binding]; other site 441772002797 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 441772002798 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772002799 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 441772002800 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 441772002801 homodimer interface [polypeptide binding]; other site 441772002802 Walker A motif; other site 441772002803 ATP binding site [chemical binding]; other site 441772002804 hydroxycobalamin binding site [chemical binding]; other site 441772002805 Walker B motif; other site 441772002806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772002807 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 441772002808 ligand binding site [chemical binding]; other site 441772002809 flexible hinge region; other site 441772002810 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 441772002811 putative switch regulator; other site 441772002812 non-specific DNA interactions [nucleotide binding]; other site 441772002813 DNA binding site [nucleotide binding] 441772002814 sequence specific DNA binding site [nucleotide binding]; other site 441772002815 putative cAMP binding site [chemical binding]; other site 441772002816 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 441772002817 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 441772002818 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 441772002819 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 441772002820 FAD binding pocket [chemical binding]; other site 441772002821 FAD binding motif [chemical binding]; other site 441772002822 phosphate binding motif [ion binding]; other site 441772002823 beta-alpha-beta structure motif; other site 441772002824 NAD binding pocket [chemical binding]; other site 441772002825 Iron coordination center [ion binding]; other site 441772002826 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 441772002827 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 441772002828 4Fe-4S binding domain; Region: Fer4; pfam00037 441772002829 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 441772002830 putative MPT binding site; other site 441772002831 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772002832 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772002833 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 441772002834 Walker A/P-loop; other site 441772002835 ATP binding site [chemical binding]; other site 441772002836 Q-loop/lid; other site 441772002837 ABC transporter signature motif; other site 441772002838 Walker B; other site 441772002839 D-loop; other site 441772002840 H-loop/switch region; other site 441772002841 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 441772002842 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772002843 active site 441772002844 phosphorylation site [posttranslational modification] 441772002845 intermolecular recognition site; other site 441772002846 dimerization interface [polypeptide binding]; other site 441772002847 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 441772002848 DNA binding site [nucleotide binding] 441772002849 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 441772002850 dimer interface [polypeptide binding]; other site 441772002851 phosphorylation site [posttranslational modification] 441772002852 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 441772002853 ATP binding site [chemical binding]; other site 441772002854 Mg2+ binding site [ion binding]; other site 441772002855 G-X-G motif; other site 441772002856 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772002857 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772002858 Walker A/P-loop; other site 441772002859 ATP binding site [chemical binding]; other site 441772002860 Q-loop/lid; other site 441772002861 ABC transporter signature motif; other site 441772002862 Walker B; other site 441772002863 D-loop; other site 441772002864 H-loop/switch region; other site 441772002865 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772002866 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 441772002867 ABC-ATPase subunit interface; other site 441772002868 dimer interface [polypeptide binding]; other site 441772002869 putative PBP binding regions; other site 441772002870 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 441772002871 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 441772002872 putative ligand binding residues [chemical binding]; other site 441772002873 dihydroxyacetone kinase; Provisional; Region: PRK14479 441772002874 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 441772002875 DAK2 domain; Region: Dak2; pfam02734 441772002876 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 441772002877 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 441772002878 dimer interface [polypeptide binding]; other site 441772002879 active site 441772002880 metal binding site [ion binding]; metal-binding site 441772002881 Sensory domain found in PocR; Region: PocR; pfam10114 441772002882 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 441772002883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002884 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772002885 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772002886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772002887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002888 Coenzyme A binding pocket [chemical binding]; other site 441772002889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002890 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772002891 Coenzyme A binding pocket [chemical binding]; other site 441772002892 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 441772002893 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 441772002894 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 441772002895 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 441772002896 active site 441772002897 catalytic tetrad [active] 441772002898 TfoX N-terminal domain; Region: TfoX_N; pfam04993 441772002899 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772002900 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772002901 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772002902 Coenzyme A binding pocket [chemical binding]; other site 441772002903 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 441772002904 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 441772002905 active site 441772002906 purine riboside binding site [chemical binding]; other site 441772002907 Predicted membrane protein [Function unknown]; Region: COG1511 441772002908 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772002909 Predicted membrane protein [Function unknown]; Region: COG1511 441772002910 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 441772002911 Predicted membrane protein [Function unknown]; Region: COG1511 441772002912 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772002913 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 441772002914 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 441772002915 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 441772002916 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 441772002917 ATP binding site [chemical binding]; other site 441772002918 putative Mg++ binding site [ion binding]; other site 441772002919 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 441772002920 nucleotide binding region [chemical binding]; other site 441772002921 ATP-binding site [chemical binding]; other site 441772002922 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 441772002923 HRDC domain; Region: HRDC; pfam00570 441772002924 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 441772002925 Rubrerythrin [Energy production and conversion]; Region: COG1592 441772002926 diiron binding motif [ion binding]; other site 441772002927 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772002928 active site 441772002929 metal binding site [ion binding]; metal-binding site 441772002930 homotetramer interface [polypeptide binding]; other site 441772002931 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772002932 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 441772002933 active site 441772002934 phosphorylation site [posttranslational modification] 441772002935 intermolecular recognition site; other site 441772002936 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 441772002937 TPR repeat; Region: TPR_11; pfam13414 441772002938 TPR motif; other site 441772002939 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 441772002940 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 441772002941 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 441772002942 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 441772002943 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 441772002944 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 441772002945 FeS/SAM binding site; other site 441772002946 Ycf46; Provisional; Region: ycf46; CHL00195 441772002947 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 441772002948 Walker A motif; other site 441772002949 ATP binding site [chemical binding]; other site 441772002950 Walker B motif; other site 441772002951 arginine finger; other site 441772002952 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 441772002953 L-lactate permease; Region: Lactate_perm; cl00701 441772002954 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 441772002955 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 441772002956 Ligand binding site [chemical binding]; other site 441772002957 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772002958 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 441772002959 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772002960 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 441772002961 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772002962 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 441772002963 FAD binding domain; Region: FAD_binding_4; pfam01565 441772002964 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772002965 MarR family; Region: MarR; pfam01047 441772002966 Putative cyclase; Region: Cyclase; pfam04199 441772002967 aspartate aminotransferase; Provisional; Region: PRK06836 441772002968 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 441772002969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772002970 homodimer interface [polypeptide binding]; other site 441772002971 catalytic residue [active] 441772002972 Putative cyclase; Region: Cyclase; pfam04199 441772002973 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 441772002974 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772002975 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772002976 DNA binding residues [nucleotide binding] 441772002977 drug binding residues [chemical binding]; other site 441772002978 dimer interface [polypeptide binding]; other site 441772002979 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 441772002980 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 441772002981 B3/4 domain; Region: B3_4; pfam03483 441772002982 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 441772002983 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 441772002984 Dimer interface [polypeptide binding]; other site 441772002985 anticodon binding site; other site 441772002986 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 441772002987 homodimer interface [polypeptide binding]; other site 441772002988 motif 1; other site 441772002989 motif 2; other site 441772002990 active site 441772002991 motif 3; other site 441772002992 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 441772002993 flavodoxin; Provisional; Region: PRK06242 441772002994 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 441772002995 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772002996 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772002997 WHG domain; Region: WHG; pfam13305 441772002998 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 441772002999 dUMP phosphatase; Provisional; Region: PRK09449 441772003000 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 441772003001 motif II; other site 441772003002 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772003003 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 441772003004 ligand binding site [chemical binding]; other site 441772003005 flexible hinge region; other site 441772003006 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 441772003007 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772003008 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 441772003009 conserved cys residue [active] 441772003010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772003011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772003012 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 441772003013 dimerization interface [polypeptide binding]; other site 441772003014 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772003015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772003016 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 441772003017 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 441772003018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 441772003019 Coenzyme A binding pocket [chemical binding]; other site 441772003020 YoaP-like; Region: YoaP; pfam14268 441772003021 FeoA domain; Region: FeoA; pfam04023 441772003022 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 441772003023 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 441772003024 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 441772003025 G1 box; other site 441772003026 GTP/Mg2+ binding site [chemical binding]; other site 441772003027 Switch I region; other site 441772003028 G2 box; other site 441772003029 G3 box; other site 441772003030 Switch II region; other site 441772003031 G4 box; other site 441772003032 G5 box; other site 441772003033 Nucleoside recognition; Region: Gate; pfam07670 441772003034 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 441772003035 Nucleoside recognition; Region: Gate; pfam07670 441772003036 Predicted membrane protein [Function unknown]; Region: COG2323 441772003037 putative acetyltransferase; Provisional; Region: PRK03624 441772003038 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772003039 Coenzyme A binding pocket [chemical binding]; other site 441772003040 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 441772003041 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 441772003042 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 441772003043 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772003044 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772003045 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772003046 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772003047 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; cl00279 441772003048 active site 441772003049 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003050 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 441772003051 active site 441772003052 phosphorylation site [posttranslational modification] 441772003053 intermolecular recognition site; other site 441772003054 dimerization interface [polypeptide binding]; other site 441772003055 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 441772003056 DNA binding site [nucleotide binding] 441772003057 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 441772003058 dimer interface [polypeptide binding]; other site 441772003059 phosphorylation site [posttranslational modification] 441772003060 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 441772003061 ATP binding site [chemical binding]; other site 441772003062 Mg2+ binding site [ion binding]; other site 441772003063 G-X-G motif; other site 441772003064 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 441772003065 Cytochrome P450; Region: p450; cl12078 441772003066 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 441772003067 metal-binding site [ion binding] 441772003068 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 441772003069 Family description; Region: DsbD_2; pfam13386 441772003070 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 441772003071 Predicted membrane protein [Function unknown]; Region: COG3462 441772003072 Short C-terminal domain; Region: SHOCT; pfam09851 441772003073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003074 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 441772003075 active site 441772003076 phosphorylation site [posttranslational modification] 441772003077 intermolecular recognition site; other site 441772003078 dimerization interface [polypeptide binding]; other site 441772003079 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 441772003080 DNA binding site [nucleotide binding] 441772003081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772003082 HAMP domain; Region: HAMP; pfam00672 441772003083 dimerization interface [polypeptide binding]; other site 441772003084 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 441772003085 dimer interface [polypeptide binding]; other site 441772003086 phosphorylation site [posttranslational modification] 441772003087 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 441772003088 ATP binding site [chemical binding]; other site 441772003089 Mg2+ binding site [ion binding]; other site 441772003090 G-X-G motif; other site 441772003091 A new structural DNA glycosylase; Region: AlkD_like; cd06561 441772003092 active site 441772003093 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772003094 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772003095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772003096 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772003097 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 441772003098 ABC-ATPase subunit interface; other site 441772003099 dimer interface [polypeptide binding]; other site 441772003100 putative PBP binding regions; other site 441772003101 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 441772003102 ABC-ATPase subunit interface; other site 441772003103 dimer interface [polypeptide binding]; other site 441772003104 putative PBP binding regions; other site 441772003105 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 441772003106 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772003107 Walker A/P-loop; other site 441772003108 ATP binding site [chemical binding]; other site 441772003109 Q-loop/lid; other site 441772003110 ABC transporter signature motif; other site 441772003111 Walker B; other site 441772003112 D-loop; other site 441772003113 H-loop/switch region; other site 441772003114 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 441772003115 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 441772003116 putative ligand binding residues [chemical binding]; other site 441772003117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772003118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772003119 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772003120 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772003121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003122 Walker A/P-loop; other site 441772003123 ATP binding site [chemical binding]; other site 441772003124 Q-loop/lid; other site 441772003125 ABC transporter signature motif; other site 441772003126 Walker B; other site 441772003127 D-loop; other site 441772003128 H-loop/switch region; other site 441772003129 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772003130 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772003131 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 441772003132 Walker A/P-loop; other site 441772003133 ATP binding site [chemical binding]; other site 441772003134 Q-loop/lid; other site 441772003135 ABC transporter signature motif; other site 441772003136 Walker B; other site 441772003137 D-loop; other site 441772003138 H-loop/switch region; other site 441772003139 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 441772003140 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 441772003141 ATP binding site [chemical binding]; other site 441772003142 Mg2+ binding site [ion binding]; other site 441772003143 G-X-G motif; other site 441772003144 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772003145 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 441772003146 active site 441772003147 phosphorylation site [posttranslational modification] 441772003148 intermolecular recognition site; other site 441772003149 dimerization interface [polypeptide binding]; other site 441772003150 LytTr DNA-binding domain; Region: LytTR; smart00850 441772003151 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 441772003152 conserved repeat domain; Region: B_ant_repeat; TIGR01451 441772003153 Domain of unknown function DUF11; Region: DUF11; pfam01345 441772003154 Domain of unknown function DUF11; Region: DUF11; cl17728 441772003155 Domain of unknown function DUF11; Region: DUF11; pfam01345 441772003156 Domain of unknown function DUF11; Region: DUF11; pfam01345 441772003157 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 441772003158 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 441772003159 putative active site [active] 441772003160 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 441772003161 Interdomain contacts; other site 441772003162 Cytokine receptor motif; other site 441772003163 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 441772003164 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 441772003165 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 441772003166 catalytic residues [active] 441772003167 Predicted membrane protein [Function unknown]; Region: COG4129 441772003168 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 441772003169 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 441772003170 Predicted Ser/Thr protein kinase [Signal transduction mechanisms]; Region: COG2112 441772003171 CAAX protease self-immunity; Region: Abi; pfam02517 441772003172 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 441772003173 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772003174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003175 Walker A/P-loop; other site 441772003176 ATP binding site [chemical binding]; other site 441772003177 Q-loop/lid; other site 441772003178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772003179 ABC transporter signature motif; other site 441772003180 Walker B; other site 441772003181 ABC transporter; Region: ABC_tran_2; pfam12848 441772003182 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772003183 Nucleoside recognition; Region: Gate; pfam07670 441772003184 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 441772003185 ArsC family; Region: ArsC; pfam03960 441772003186 catalytic residue [active] 441772003187 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 441772003188 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 441772003189 FeS/SAM binding site; other site 441772003190 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 441772003191 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772003192 hydroxyglutarate oxidase; Provisional; Region: PRK11728 441772003193 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 441772003194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772003195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772003196 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 441772003197 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 441772003198 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 441772003199 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 441772003200 putative substrate translocation pore; other site 441772003201 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 441772003202 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 441772003203 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 441772003204 active site 441772003205 HIGH motif; other site 441772003206 KMSK motif region; other site 441772003207 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 441772003208 tRNA binding surface [nucleotide binding]; other site 441772003209 anticodon binding site; other site 441772003210 transaminase; Validated; Region: PRK07324 441772003211 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 441772003212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003213 homodimer interface [polypeptide binding]; other site 441772003214 catalytic residue [active] 441772003215 FOG: CBS domain [General function prediction only]; Region: COG0517 441772003216 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 441772003217 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 441772003218 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 441772003219 G1 box; other site 441772003220 GTP/Mg2+ binding site [chemical binding]; other site 441772003221 Switch I region; other site 441772003222 G2 box; other site 441772003223 G3 box; other site 441772003224 Switch II region; other site 441772003225 G4 box; other site 441772003226 G5 box; other site 441772003227 Nucleoside recognition; Region: Gate; pfam07670 441772003228 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 441772003229 Nucleoside recognition; Region: Gate; pfam07670 441772003230 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 441772003231 PilZ domain; Region: PilZ; pfam07238 441772003232 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772003233 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 441772003234 motif II; other site 441772003235 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 441772003236 active site 441772003237 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 441772003238 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 441772003239 aromatic chitin/cellulose binding site residues [chemical binding]; other site 441772003240 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 441772003241 aromatic chitin/cellulose binding site residues [chemical binding]; other site 441772003242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772003243 Coenzyme A binding pocket [chemical binding]; other site 441772003244 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 441772003245 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 441772003246 Walker A/P-loop; other site 441772003247 ATP binding site [chemical binding]; other site 441772003248 Q-loop/lid; other site 441772003249 ABC transporter signature motif; other site 441772003250 Walker B; other site 441772003251 D-loop; other site 441772003252 H-loop/switch region; other site 441772003253 NIL domain; Region: NIL; pfam09383 441772003254 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 441772003255 dimer interface [polypeptide binding]; other site 441772003256 conserved gate region; other site 441772003257 ABC-ATPase subunit interface; other site 441772003258 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 441772003259 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 441772003260 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 441772003261 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 441772003262 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 441772003263 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_subfamily5; cd08019 441772003264 metal binding site [ion binding]; metal-binding site 441772003265 putative dimer interface [polypeptide binding]; other site 441772003266 RNase_H superfamily; Region: RNase_H_2; pfam13482 441772003267 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772003268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003269 DNA-binding site [nucleotide binding]; DNA binding site 441772003270 FCD domain; Region: FCD; pfam07729 441772003271 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772003272 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772003273 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772003274 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 441772003275 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 441772003276 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 441772003277 active site 441772003278 HIGH motif; other site 441772003279 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 441772003280 active site 441772003281 KMSKS motif; other site 441772003282 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 441772003283 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 441772003284 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 441772003285 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 441772003286 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 441772003287 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772003288 Beta-Casp domain; Region: Beta-Casp; smart01027 441772003289 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772003290 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772003291 Zn2+ binding site [ion binding]; other site 441772003292 Mg2+ binding site [ion binding]; other site 441772003293 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 441772003294 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 441772003295 NAD(P) binding site [chemical binding]; other site 441772003296 catalytic residues [active] 441772003297 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003298 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003299 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003300 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003301 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772003302 MarR family; Region: MarR_2; pfam12802 441772003303 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772003304 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772003305 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772003306 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 441772003307 hypothetical protein; Provisional; Region: PRK11622 441772003308 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772003309 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 441772003310 dimer interface [polypeptide binding]; other site 441772003311 conserved gate region; other site 441772003312 putative PBP binding loops; other site 441772003313 ABC-ATPase subunit interface; other site 441772003314 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 441772003315 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 441772003316 dimer interface [polypeptide binding]; other site 441772003317 conserved gate region; other site 441772003318 putative PBP binding loops; other site 441772003319 ABC-ATPase subunit interface; other site 441772003320 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772003321 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 441772003322 Walker A/P-loop; other site 441772003323 ATP binding site [chemical binding]; other site 441772003324 Q-loop/lid; other site 441772003325 ABC transporter signature motif; other site 441772003326 Walker B; other site 441772003327 D-loop; other site 441772003328 H-loop/switch region; other site 441772003329 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 441772003330 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772003331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772003332 Coenzyme A binding pocket [chemical binding]; other site 441772003333 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 441772003334 catalytic residues [active] 441772003335 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 441772003336 maltose O-acetyltransferase; Provisional; Region: PRK10092 441772003337 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 441772003338 active site 441772003339 substrate binding site [chemical binding]; other site 441772003340 trimer interface [polypeptide binding]; other site 441772003341 CoA binding site [chemical binding]; other site 441772003342 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 441772003343 Biotin operon repressor [Transcription]; Region: BirA; COG1654 441772003344 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 441772003345 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 441772003346 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 441772003347 metal-binding site [ion binding] 441772003348 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 441772003349 FOG: CBS domain [General function prediction only]; Region: COG0517 441772003350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772003351 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 441772003352 dimer interface [polypeptide binding]; other site 441772003353 phosphorylation site [posttranslational modification] 441772003354 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 441772003355 ATP binding site [chemical binding]; other site 441772003356 Mg2+ binding site [ion binding]; other site 441772003357 G-X-G motif; other site 441772003358 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 441772003359 nucleophile elbow; other site 441772003360 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 441772003361 MgtE intracellular N domain; Region: MgtE_N; smart00924 441772003362 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 441772003363 Divalent cation transporter; Region: MgtE; pfam01769 441772003364 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 441772003365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772003366 catalytic residue [active] 441772003367 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 441772003368 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 441772003369 putative ligand binding site [chemical binding]; other site 441772003370 NAD binding site [chemical binding]; other site 441772003371 dimerization interface [polypeptide binding]; other site 441772003372 catalytic site [active] 441772003373 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 441772003374 Uncharacterized conserved protein [Function unknown]; Region: COG4198 441772003375 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 441772003376 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772003377 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772003378 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772003379 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772003380 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772003381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 441772003382 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772003383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772003384 BCCT family transporter; Region: BCCT; pfam02028 441772003385 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 441772003386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003387 DNA-binding site [nucleotide binding]; DNA binding site 441772003388 TrkA-C domain; Region: TrkA_C; pfam02080 441772003389 Flavin Reductases; Region: FlaRed; cl00801 441772003390 Isochorismatase family; Region: Isochorismatase; pfam00857 441772003391 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; cl00220 441772003392 catalytic triad [active] 441772003393 conserved cis-peptide bond; other site 441772003394 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 441772003395 active site residue [active] 441772003396 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 441772003397 TPR repeat; Region: TPR_11; pfam13414 441772003398 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 441772003399 binding surface 441772003400 TPR motif; other site 441772003401 TPR repeat; Region: TPR_11; pfam13414 441772003402 TPR repeat; Region: TPR_11; pfam13414 441772003403 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 441772003404 binding surface 441772003405 TPR motif; other site 441772003406 TPR repeat; Region: TPR_11; pfam13414 441772003407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772003408 active site 441772003409 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 441772003410 Rhodanese Homology Domain; Region: RHOD; smart00450 441772003411 active site residue [active] 441772003412 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772003413 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 441772003414 active site residue [active] 441772003415 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 441772003416 active site residue [active] 441772003417 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772003418 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 441772003419 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 441772003420 putative metal binding site [ion binding]; other site 441772003421 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_HprK; cl00270 441772003422 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_HprK; cl00270 441772003423 active site 441772003424 metal-binding site [ion binding] 441772003425 nucleotide-binding site [chemical binding]; other site 441772003426 nucleotide-binding site [chemical binding]; other site 441772003427 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 441772003428 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772003429 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 441772003430 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 441772003431 dimer interface [polypeptide binding]; other site 441772003432 conserved gate region; other site 441772003433 putative PBP binding loops; other site 441772003434 ABC-ATPase subunit interface; other site 441772003435 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 441772003436 dimer interface [polypeptide binding]; other site 441772003437 conserved gate region; other site 441772003438 putative PBP binding loops; other site 441772003439 ABC-ATPase subunit interface; other site 441772003440 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 441772003441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003442 Walker A/P-loop; other site 441772003443 ATP binding site [chemical binding]; other site 441772003444 Q-loop/lid; other site 441772003445 ABC transporter signature motif; other site 441772003446 Walker B; other site 441772003447 D-loop; other site 441772003448 H-loop/switch region; other site 441772003449 TOBE domain; Region: TOBE_2; pfam08402 441772003450 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 441772003451 Double zinc ribbon; Region: DZR; pfam12773 441772003452 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 441772003453 Double zinc ribbon; Region: DZR; pfam12773 441772003454 YARHG domain; Region: YARHG; pfam13308 441772003455 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 441772003456 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 441772003457 RNA binding site [nucleotide binding]; other site 441772003458 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 441772003459 RNA binding site [nucleotide binding]; other site 441772003460 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 441772003461 RNA binding site [nucleotide binding]; other site 441772003462 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...; Region: S1_RPS1_repeat_hs4; cd05692 441772003463 RNA binding site [nucleotide binding]; other site 441772003464 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 441772003465 active site 441772003466 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 441772003467 hexamer interface [polypeptide binding]; other site 441772003468 RNA binding site [nucleotide binding]; other site 441772003469 Histidine-zinc binding site [chemical binding]; other site 441772003470 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 441772003471 zinc binding site [ion binding]; other site 441772003472 putative ligand binding site [chemical binding]; other site 441772003473 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 441772003474 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 441772003475 TM-ABC transporter signature motif; other site 441772003476 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 441772003477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003478 Walker A/P-loop; other site 441772003479 ATP binding site [chemical binding]; other site 441772003480 Q-loop/lid; other site 441772003481 ABC transporter signature motif; other site 441772003482 Walker B; other site 441772003483 D-loop; other site 441772003484 H-loop/switch region; other site 441772003485 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 441772003486 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 441772003487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003488 homodimer interface [polypeptide binding]; other site 441772003489 catalytic residue [active] 441772003490 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 441772003491 EamA-like transporter family; Region: EamA; pfam00892 441772003492 EamA-like transporter family; Region: EamA; pfam00892 441772003493 putative kinase; Provisional; Region: PRK09954 441772003494 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 441772003495 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 441772003496 substrate binding site [chemical binding]; other site 441772003497 ATP binding site [chemical binding]; other site 441772003498 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 441772003499 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 441772003500 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 441772003501 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 441772003502 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 441772003503 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 441772003504 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 441772003505 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 441772003506 homodimer interface [polypeptide binding]; other site 441772003507 NADP binding site [chemical binding]; other site 441772003508 substrate binding site [chemical binding]; other site 441772003509 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772003510 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 441772003511 active site 441772003512 motif I; other site 441772003513 motif II; other site 441772003514 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 441772003515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772003516 Coenzyme A binding pocket [chemical binding]; other site 441772003517 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 441772003518 ZIP Zinc transporter; Region: Zip; pfam02535 441772003519 Predicted transcriptional regulator [Transcription]; Region: COG1959 441772003520 Transcriptional regulator; Region: Rrf2; cl17282 441772003521 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 441772003522 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 441772003523 dimer interface [polypeptide binding]; other site 441772003524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772003525 catalytic residue [active] 441772003526 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772003527 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 441772003528 dimer interface [polypeptide binding]; other site 441772003529 conserved gate region; other site 441772003530 putative PBP binding loops; other site 441772003531 ABC-ATPase subunit interface; other site 441772003532 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772003533 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 441772003534 substrate binding pocket [chemical binding]; other site 441772003535 membrane-bound complex binding site; other site 441772003536 hinge residues; other site 441772003537 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 441772003538 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 441772003539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772003540 catalytic residue [active] 441772003541 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 441772003542 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 441772003543 Ligand Binding Site [chemical binding]; other site 441772003544 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 441772003545 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 441772003546 Ligand Binding Site [chemical binding]; other site 441772003547 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772003548 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 441772003549 active site 441772003550 phosphorylation site [posttranslational modification] 441772003551 intermolecular recognition site; other site 441772003552 LytTr DNA-binding domain; Region: LytTR; pfam04397 441772003553 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 441772003554 ATP binding site [chemical binding]; other site 441772003555 Mg2+ binding site [ion binding]; other site 441772003556 G-X-G motif; other site 441772003557 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772003558 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 441772003559 Walker A/P-loop; other site 441772003560 ATP binding site [chemical binding]; other site 441772003561 Q-loop/lid; other site 441772003562 ABC transporter signature motif; other site 441772003563 Walker B; other site 441772003564 D-loop; other site 441772003565 H-loop/switch region; other site 441772003566 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772003567 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 441772003568 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 441772003569 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772003570 active site 441772003571 catalytic site [active] 441772003572 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 441772003573 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 441772003574 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 441772003575 dimer interface [polypeptide binding]; other site 441772003576 PYR/PP interface [polypeptide binding]; other site 441772003577 TPP binding site [chemical binding]; other site 441772003578 substrate binding site [chemical binding]; other site 441772003579 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 441772003580 Domain of unknown function; Region: EKR; pfam10371 441772003581 4Fe-4S binding domain; Region: Fer4_6; pfam12837 441772003582 4Fe-4S binding domain; Region: Fer4; pfam00037 441772003583 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 441772003584 TPP-binding site [chemical binding]; other site 441772003585 dimer interface [polypeptide binding]; other site 441772003586 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772003587 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772003588 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772003589 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772003590 Uncharacterized conserved protein [Function unknown]; Region: COG0397 441772003591 hypothetical protein; Validated; Region: PRK00029 441772003592 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 441772003593 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772003594 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 441772003595 Helix-turn-helix domain; Region: HTH_18; pfam12833 441772003596 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772003597 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 441772003598 MFS/sugar transport protein; Region: MFS_2; pfam13347 441772003599 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 441772003600 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 441772003601 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772003602 nucleotide binding site [chemical binding]; other site 441772003603 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 441772003604 beta-galactosidase; Region: BGL; TIGR03356 441772003605 Glycosyl hydrolase family 14; Region: Glyco_hydro_14; cl03185 441772003606 Beta-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Beta-amylase has, in addition to its C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 14, which hydrolyzes the alpha-1; Region: CBM20_beta_amylase; cd05809 441772003607 starch-binding site 2 [chemical binding]; other site 441772003608 starch-binding site 1 [chemical binding]; other site 441772003609 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 441772003610 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 441772003611 active site 441772003612 HIGH motif; other site 441772003613 dimer interface [polypeptide binding]; other site 441772003614 KMSKS motif; other site 441772003615 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 441772003616 RNA binding surface [nucleotide binding]; other site 441772003617 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772003618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003619 DNA-binding site [nucleotide binding]; DNA binding site 441772003620 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772003621 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003622 Walker A/P-loop; other site 441772003623 ATP binding site [chemical binding]; other site 441772003624 Q-loop/lid; other site 441772003625 ABC transporter signature motif; other site 441772003626 Walker B; other site 441772003627 D-loop; other site 441772003628 H-loop/switch region; other site 441772003629 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772003630 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 441772003631 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772003632 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772003633 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 441772003634 active site 441772003635 PAS domain S-box; Region: sensory_box; TIGR00229 441772003636 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 441772003637 putative active site [active] 441772003638 heme pocket [chemical binding]; other site 441772003639 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772003640 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772003641 metal binding site [ion binding]; metal-binding site 441772003642 active site 441772003643 I-site; other site 441772003644 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 441772003645 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 441772003646 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 441772003647 putative L-serine binding site [chemical binding]; other site 441772003648 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 441772003649 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 441772003650 Uncharacterized conserved protein [Function unknown]; Region: COG5663 441772003651 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 441772003652 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 441772003653 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 441772003654 active site 441772003655 dimer interface [polypeptide binding]; other site 441772003656 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 441772003657 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003658 FtsX-like permease family; Region: FtsX; pfam02687 441772003659 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 441772003660 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003661 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772003662 Walker A/P-loop; other site 441772003663 ATP binding site [chemical binding]; other site 441772003664 Q-loop/lid; other site 441772003665 ABC transporter signature motif; other site 441772003666 Walker B; other site 441772003667 D-loop; other site 441772003668 H-loop/switch region; other site 441772003669 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 441772003670 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 441772003671 dimer interface [polypeptide binding]; other site 441772003672 conserved gate region; other site 441772003673 putative PBP binding loops; other site 441772003674 ABC-ATPase subunit interface; other site 441772003675 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772003676 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 441772003677 dimer interface [polypeptide binding]; other site 441772003678 conserved gate region; other site 441772003679 putative PBP binding loops; other site 441772003680 ABC-ATPase subunit interface; other site 441772003681 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 441772003682 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 441772003683 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 441772003684 CotJB protein; Region: CotJB; pfam12652 441772003685 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 441772003686 dimanganese center [ion binding]; other site 441772003687 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 441772003688 Tubby C 2; Region: Tub_2; cl02043 441772003689 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 441772003690 trimer interface [polypeptide binding]; other site 441772003691 active site 441772003692 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 441772003693 small acid-soluble spore protein, H-type; Region: SASP_H; TIGR02861 441772003694 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 441772003695 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 441772003696 non-specific DNA binding site [nucleotide binding]; other site 441772003697 salt bridge; other site 441772003698 sequence-specific DNA binding site [nucleotide binding]; other site 441772003699 Cupin domain; Region: Cupin_2; pfam07883 441772003700 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 441772003701 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 441772003702 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772003703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772003704 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 441772003705 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772003706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772003707 Walker A/P-loop; other site 441772003708 ATP binding site [chemical binding]; other site 441772003709 Q-loop/lid; other site 441772003710 ABC transporter signature motif; other site 441772003711 Walker B; other site 441772003712 D-loop; other site 441772003713 H-loop/switch region; other site 441772003714 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003715 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 441772003716 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 441772003717 non-specific DNA binding site [nucleotide binding]; other site 441772003718 salt bridge; other site 441772003719 sequence-specific DNA binding site [nucleotide binding]; other site 441772003720 Helix-turn-helix domain; Region: HTH_17; pfam12728 441772003721 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 441772003722 catalytic residues [active] 441772003723 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 441772003724 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 441772003725 tetrameric interface [polypeptide binding]; other site 441772003726 activator binding site; other site 441772003727 NADP binding site [chemical binding]; other site 441772003728 substrate binding site [chemical binding]; other site 441772003729 catalytic residues [active] 441772003730 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 441772003731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772003732 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 441772003733 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772003734 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 441772003735 selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family; Region: various_sel_PB; TIGR01918 441772003736 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 441772003737 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772003738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772003739 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 441772003740 catalytic residues [active] 441772003741 glycine/sarcosine/betaine reductase complex protein A; Reviewed; Region: PRK13265 441772003742 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 441772003743 dimer interface [polypeptide binding]; other site 441772003744 active site 441772003745 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 441772003746 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 441772003747 active site 441772003748 DNA binding site [nucleotide binding] 441772003749 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 441772003750 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 441772003751 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 441772003752 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 441772003753 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 441772003754 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 441772003755 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 441772003756 intersubunit interface [polypeptide binding]; other site 441772003757 active site 441772003758 Zn2+ binding site [ion binding]; other site 441772003759 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772003760 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 441772003761 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 441772003762 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 441772003763 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772003764 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 441772003765 Predicted membrane protein [Function unknown]; Region: COG2323 441772003766 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 441772003767 Sporulation protein YtrH; Region: Spore_YtrH; pfam14034 441772003768 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 441772003769 A short protein domain of unknown function; Region: IDEAL; smart00914 441772003770 PQ loop repeat; Region: PQ-loop; cl17546 441772003771 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 441772003772 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 441772003773 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772003774 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 441772003775 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 441772003776 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772003777 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 441772003778 catalytic loop [active] 441772003779 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 441772003780 iron binding site [ion binding]; other site 441772003781 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772003782 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 441772003783 nucleoside/Zn binding site; other site 441772003784 dimer interface [polypeptide binding]; other site 441772003785 catalytic motif [active] 441772003786 DNA topoisomerase III; Provisional; Region: PRK07726 441772003787 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 441772003788 active site 441772003789 putative interdomain interaction site [polypeptide binding]; other site 441772003790 putative metal-binding site [ion binding]; other site 441772003791 putative nucleotide binding site [chemical binding]; other site 441772003792 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 441772003793 domain I; other site 441772003794 DNA binding groove [nucleotide binding] 441772003795 phosphate binding site [ion binding]; other site 441772003796 domain II; other site 441772003797 domain III; other site 441772003798 nucleotide binding site [chemical binding]; other site 441772003799 catalytic site [active] 441772003800 domain IV; other site 441772003801 Predicted membrane protein [Function unknown]; Region: COG1971 441772003802 Domain of unknown function DUF; Region: DUF204; pfam02659 441772003803 Domain of unknown function DUF; Region: DUF204; pfam02659 441772003804 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 441772003805 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772003806 active site 441772003807 intersubunit interactions; other site 441772003808 catalytic residue [active] 441772003809 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 441772003810 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772003811 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772003812 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772003813 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772003814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772003815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772003816 metal binding site [ion binding]; metal-binding site 441772003817 active site 441772003818 I-site; other site 441772003819 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 441772003820 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 441772003821 NodB motif; other site 441772003822 putative active site [active] 441772003823 putative catalytic site [active] 441772003824 putative Zn binding site [ion binding]; other site 441772003825 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 441772003826 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 441772003827 DXD motif; other site 441772003828 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 441772003829 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772003830 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 441772003831 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 441772003832 putative homodimer interface [polypeptide binding]; other site 441772003833 putative homotetramer interface [polypeptide binding]; other site 441772003834 putative allosteric switch controlling residues; other site 441772003835 putative metal binding site [ion binding]; other site 441772003836 putative homodimer-homodimer interface [polypeptide binding]; other site 441772003837 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772003838 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 441772003839 metal-binding site [ion binding] 441772003840 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 441772003841 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 441772003842 metal-binding site [ion binding] 441772003843 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772003844 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 441772003845 motif II; other site 441772003846 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 441772003847 metal-binding site [ion binding] 441772003848 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772003849 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772003850 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772003851 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772003852 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772003853 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772003854 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772003855 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 441772003856 Walker A/P-loop; other site 441772003857 ATP binding site [chemical binding]; other site 441772003858 Q-loop/lid; other site 441772003859 ABC transporter signature motif; other site 441772003860 Walker B; other site 441772003861 D-loop; other site 441772003862 H-loop/switch region; other site 441772003863 CAAX protease self-immunity; Region: Abi; pfam02517 441772003864 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772003865 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003866 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 441772003867 active site 441772003868 phosphorylation site [posttranslational modification] 441772003869 intermolecular recognition site; other site 441772003870 dimerization interface [polypeptide binding]; other site 441772003871 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 441772003872 DNA binding site [nucleotide binding] 441772003873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772003874 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 441772003875 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 441772003876 ATP binding site [chemical binding]; other site 441772003877 Mg2+ binding site [ion binding]; other site 441772003878 G-X-G motif; other site 441772003879 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003880 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772003881 Walker A/P-loop; other site 441772003882 ATP binding site [chemical binding]; other site 441772003883 Q-loop/lid; other site 441772003884 ABC transporter signature motif; other site 441772003885 Walker B; other site 441772003886 D-loop; other site 441772003887 H-loop/switch region; other site 441772003888 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003889 FtsX-like permease family; Region: FtsX; pfam02687 441772003890 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003891 FtsX-like permease family; Region: FtsX; pfam02687 441772003892 EDD domain protein, DegV family; Region: DegV; TIGR00762 441772003893 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 441772003894 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 441772003895 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 441772003896 nucleotide binding site/active site [active] 441772003897 HIT family signature motif; other site 441772003898 catalytic residue [active] 441772003899 Membrane protein of unknown function; Region: DUF360; pfam04020 441772003900 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 441772003901 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 441772003902 YibE/F-like protein; Region: YibE_F; pfam07907 441772003903 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 441772003904 TrkA-N domain; Region: TrkA_N; pfam02254 441772003905 TrkA-C domain; Region: TrkA_C; pfam02080 441772003906 TrkA-N domain; Region: TrkA_N; pfam02254 441772003907 TrkA-C domain; Region: TrkA_C; pfam02080 441772003908 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 441772003909 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 441772003910 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 441772003911 Part of AAA domain; Region: AAA_19; pfam13245 441772003912 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 441772003913 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772003914 active site 441772003915 catalytic site [active] 441772003916 substrate binding site [chemical binding]; other site 441772003917 Family description; Region: UvrD_C_2; pfam13538 441772003918 Predicted membrane protein [General function prediction only]; Region: COG4194 441772003919 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 441772003920 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772003921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772003922 DNA-binding site [nucleotide binding]; DNA binding site 441772003923 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772003924 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772003925 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772003926 Rubrerythrin [Energy production and conversion]; Region: COG1592 441772003927 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 441772003928 binuclear metal center [ion binding]; other site 441772003929 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 441772003930 iron binding site [ion binding]; other site 441772003931 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003932 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003933 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772003934 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772003935 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 441772003936 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 441772003937 active site turn [active] 441772003938 phosphorylation site [posttranslational modification] 441772003939 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 441772003940 HPr interaction site; other site 441772003941 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772003942 active site 441772003943 phosphorylation site [posttranslational modification] 441772003944 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 441772003945 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 441772003946 catalytic residue [active] 441772003947 putative FPP diphosphate binding site; other site 441772003948 putative FPP binding hydrophobic cleft; other site 441772003949 dimer interface [polypeptide binding]; other site 441772003950 putative IPP diphosphate binding site; other site 441772003951 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772003952 Transcriptional regulator; Region: Rrf2; pfam02082 441772003953 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 441772003954 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 441772003955 ACS interaction site; other site 441772003956 CODH interaction site; other site 441772003957 metal cluster binding site [ion binding]; other site 441772003958 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 441772003959 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772003960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772003961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772003962 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772003963 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 441772003964 active site 441772003965 phosphorylation site [posttranslational modification] 441772003966 intermolecular recognition site; other site 441772003967 dimerization interface [polypeptide binding]; other site 441772003968 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 441772003969 DNA binding site [nucleotide binding] 441772003970 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772003971 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 441772003972 ATP binding site [chemical binding]; other site 441772003973 Mg2+ binding site [ion binding]; other site 441772003974 G-X-G motif; other site 441772003975 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772003976 FtsX-like permease family; Region: FtsX; pfam02687 441772003977 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772003978 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772003979 Walker A/P-loop; other site 441772003980 ATP binding site [chemical binding]; other site 441772003981 Q-loop/lid; other site 441772003982 ABC transporter signature motif; other site 441772003983 Walker B; other site 441772003984 D-loop; other site 441772003985 H-loop/switch region; other site 441772003986 EamA-like transporter family; Region: EamA; pfam00892 441772003987 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772003988 EamA-like transporter family; Region: EamA; pfam00892 441772003989 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772003990 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 441772003991 ligand binding site [chemical binding]; other site 441772003992 flexible hinge region; other site 441772003993 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 441772003994 putative switch regulator; other site 441772003995 non-specific DNA interactions [nucleotide binding]; other site 441772003996 DNA binding site [nucleotide binding] 441772003997 sequence specific DNA binding site [nucleotide binding]; other site 441772003998 putative cAMP binding site [chemical binding]; other site 441772003999 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 441772004000 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772004001 putative substrate translocation pore; other site 441772004002 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772004003 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 441772004004 putative binding site residues; other site 441772004005 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 441772004006 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 441772004007 ABC-ATPase subunit interface; other site 441772004008 dimer interface [polypeptide binding]; other site 441772004009 putative PBP binding regions; other site 441772004010 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772004011 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772004012 Walker A/P-loop; other site 441772004013 ATP binding site [chemical binding]; other site 441772004014 Q-loop/lid; other site 441772004015 ABC transporter signature motif; other site 441772004016 Walker B; other site 441772004017 D-loop; other site 441772004018 H-loop/switch region; other site 441772004019 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772004020 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772004021 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772004022 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772004023 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 441772004024 putative active site [active] 441772004025 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 441772004026 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 441772004027 putative active site [active] 441772004028 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 441772004029 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 441772004030 active site turn [active] 441772004031 phosphorylation site [posttranslational modification] 441772004032 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772004033 Uncharacterized conserved protein [Function unknown]; Region: COG3589 441772004034 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 441772004035 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 441772004036 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 441772004037 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 441772004038 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772004039 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 441772004040 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772004041 HAMP domain; Region: HAMP; pfam00672 441772004042 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004043 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004044 dimer interface [polypeptide binding]; other site 441772004045 putative CheW interface [polypeptide binding]; other site 441772004046 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 441772004047 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_19; cd08518 441772004048 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772004049 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 441772004050 dimer interface [polypeptide binding]; other site 441772004051 conserved gate region; other site 441772004052 putative PBP binding loops; other site 441772004053 ABC-ATPase subunit interface; other site 441772004054 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 441772004055 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 441772004056 dimer interface [polypeptide binding]; other site 441772004057 conserved gate region; other site 441772004058 putative PBP binding loops; other site 441772004059 ABC-ATPase subunit interface; other site 441772004060 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 441772004061 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 441772004062 Walker A/P-loop; other site 441772004063 ATP binding site [chemical binding]; other site 441772004064 Q-loop/lid; other site 441772004065 ABC transporter signature motif; other site 441772004066 Walker B; other site 441772004067 D-loop; other site 441772004068 H-loop/switch region; other site 441772004069 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 441772004070 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 441772004071 Walker A/P-loop; other site 441772004072 ATP binding site [chemical binding]; other site 441772004073 Q-loop/lid; other site 441772004074 ABC transporter signature motif; other site 441772004075 Walker B; other site 441772004076 D-loop; other site 441772004077 H-loop/switch region; other site 441772004078 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 441772004079 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 441772004080 ABC-ATPase subunit interface; other site 441772004081 dimer interface [polypeptide binding]; other site 441772004082 putative PBP binding regions; other site 441772004083 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 441772004084 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 441772004085 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 441772004086 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 441772004087 intersubunit interface [polypeptide binding]; other site 441772004088 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 441772004089 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 441772004090 nucleotide binding region [chemical binding]; other site 441772004091 ATP-binding site [chemical binding]; other site 441772004092 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 441772004093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772004094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772004095 metal binding site [ion binding]; metal-binding site 441772004096 active site 441772004097 I-site; other site 441772004098 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 441772004099 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; cl17432 441772004100 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 441772004101 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 441772004102 dimer interface [polypeptide binding]; other site 441772004103 conserved gate region; other site 441772004104 putative PBP binding loops; other site 441772004105 ABC-ATPase subunit interface; other site 441772004106 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004108 Walker A/P-loop; other site 441772004109 ATP binding site [chemical binding]; other site 441772004110 Q-loop/lid; other site 441772004111 ABC transporter signature motif; other site 441772004112 Walker B; other site 441772004113 D-loop; other site 441772004114 H-loop/switch region; other site 441772004115 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772004116 metal binding site 2 [ion binding]; metal-binding site 441772004117 putative DNA binding helix; other site 441772004118 metal binding site 1 [ion binding]; metal-binding site 441772004119 dimer interface [polypeptide binding]; other site 441772004120 structural Zn2+ binding site [ion binding]; other site 441772004121 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 441772004122 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772004123 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 441772004124 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 441772004125 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772004126 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 441772004127 putative active site [active] 441772004128 Zn binding site [ion binding]; other site 441772004129 ribonuclease Z; Region: RNase_Z; TIGR02651 441772004130 L-type amino acid transporter; Region: 2A0308; TIGR00911 441772004131 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 441772004132 pentamer interface [polypeptide binding]; other site 441772004133 dodecaamer interface [polypeptide binding]; other site 441772004134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 441772004135 Histidine kinase; Region: HisKA_3; pfam07730 441772004136 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 441772004137 ATP binding site [chemical binding]; other site 441772004138 Mg2+ binding site [ion binding]; other site 441772004139 G-X-G motif; other site 441772004140 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 441772004141 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 441772004142 active site 441772004143 phosphorylation site [posttranslational modification] 441772004144 intermolecular recognition site; other site 441772004145 dimerization interface [polypeptide binding]; other site 441772004146 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 441772004147 DNA binding residues [nucleotide binding] 441772004148 dimerization interface [polypeptide binding]; other site 441772004149 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772004150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004151 Walker A/P-loop; other site 441772004152 ATP binding site [chemical binding]; other site 441772004153 Q-loop/lid; other site 441772004154 ABC transporter signature motif; other site 441772004155 Walker B; other site 441772004156 D-loop; other site 441772004157 H-loop/switch region; other site 441772004158 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 441772004159 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772004160 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 441772004161 FMN binding site [chemical binding]; other site 441772004162 dimer interface [polypeptide binding]; other site 441772004163 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...; Region: CSP_CDS; cd04458 441772004164 DNA-binding site [nucleotide binding]; DNA binding site 441772004165 RNA-binding motif; other site 441772004166 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772004167 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772004168 metal binding site [ion binding]; metal-binding site 441772004169 dimer interface [polypeptide binding]; other site 441772004170 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772004171 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 441772004172 dimer interface [polypeptide binding]; other site 441772004173 pyridoxal binding site [chemical binding]; other site 441772004174 ATP binding site [chemical binding]; other site 441772004175 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 441772004176 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004177 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772004178 Walker A/P-loop; other site 441772004179 ATP binding site [chemical binding]; other site 441772004180 Q-loop/lid; other site 441772004181 ABC transporter signature motif; other site 441772004182 Walker B; other site 441772004183 D-loop; other site 441772004184 H-loop/switch region; other site 441772004185 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772004186 FtsX-like permease family; Region: FtsX; pfam02687 441772004187 FtsX-like permease family; Region: FtsX; pfam02687 441772004188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004189 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 441772004190 active site 441772004191 phosphorylation site [posttranslational modification] 441772004192 intermolecular recognition site; other site 441772004193 dimerization interface [polypeptide binding]; other site 441772004194 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 441772004195 DNA binding site [nucleotide binding] 441772004196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772004197 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 441772004198 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 441772004199 ATP binding site [chemical binding]; other site 441772004200 Mg2+ binding site [ion binding]; other site 441772004201 G-X-G motif; other site 441772004202 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004203 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772004204 Walker A/P-loop; other site 441772004205 ATP binding site [chemical binding]; other site 441772004206 Q-loop/lid; other site 441772004207 ABC transporter signature motif; other site 441772004208 Walker B; other site 441772004209 D-loop; other site 441772004210 H-loop/switch region; other site 441772004211 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 441772004212 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 441772004213 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 441772004214 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 441772004215 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 441772004216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004217 homodimer interface [polypeptide binding]; other site 441772004218 catalytic residue [active] 441772004219 Cobalt transport protein component CbiN; Region: CbiN; cl00842 441772004220 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 441772004221 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772004222 substrate binding pocket [chemical binding]; other site 441772004223 membrane-bound complex binding site; other site 441772004224 hinge residues; other site 441772004225 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 441772004226 dimer interface [polypeptide binding]; other site 441772004227 conserved gate region; other site 441772004228 putative PBP binding loops; other site 441772004229 ABC-ATPase subunit interface; other site 441772004230 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772004231 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 441772004232 Walker A/P-loop; other site 441772004233 ATP binding site [chemical binding]; other site 441772004234 Q-loop/lid; other site 441772004235 ABC transporter signature motif; other site 441772004236 Walker B; other site 441772004237 D-loop; other site 441772004238 H-loop/switch region; other site 441772004239 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 441772004240 non-specific DNA binding site [nucleotide binding]; other site 441772004241 salt bridge; other site 441772004242 sequence-specific DNA binding site [nucleotide binding]; other site 441772004243 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 441772004244 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 441772004245 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 441772004246 putative active site [active] 441772004247 putative CoA binding site [chemical binding]; other site 441772004248 nudix motif; other site 441772004249 metal binding site [ion binding]; metal-binding site 441772004250 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 441772004251 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 441772004252 dimer interface [polypeptide binding]; other site 441772004253 active site 441772004254 metal binding site [ion binding]; metal-binding site 441772004255 Predicted membrane protein [Function unknown]; Region: COG1288 441772004256 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 441772004257 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 441772004258 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 441772004259 active site 441772004260 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 441772004261 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772004262 substrate binding pocket [chemical binding]; other site 441772004263 membrane-bound complex binding site; other site 441772004264 hinge residues; other site 441772004265 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772004266 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 441772004267 dimer interface [polypeptide binding]; other site 441772004268 conserved gate region; other site 441772004269 putative PBP binding loops; other site 441772004270 ABC-ATPase subunit interface; other site 441772004271 Protein of unknown function (DUF523); Region: DUF523; cl00733 441772004272 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 441772004273 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 441772004274 ATP binding site [chemical binding]; other site 441772004275 Family description; Region: UvrD_C_2; pfam13538 441772004276 cell division protein FtsA; Region: ftsA; TIGR01174 441772004277 Cell division protein FtsA; Region: FtsA; smart00842 441772004278 Cell division protein FtsA; Region: FtsA; pfam14450 441772004279 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 441772004280 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 441772004281 metal binding site [ion binding]; metal-binding site 441772004282 dimer interface [polypeptide binding]; other site 441772004283 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772004284 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 441772004285 active site 441772004286 metal binding site [ion binding]; metal-binding site 441772004287 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 441772004288 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 441772004289 RNA binding surface [nucleotide binding]; other site 441772004290 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 441772004291 active site 441772004292 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772004293 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 441772004294 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772004295 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 441772004296 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 441772004297 diiron binding motif [ion binding]; other site 441772004298 Iron-containing alcohol dehydrogenase; Region: Fe-ADH8; cd08186 441772004299 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 441772004300 putative active site [active] 441772004301 metal binding site [ion binding]; metal-binding site 441772004302 AAA domain; Region: AAA_32; pfam13654 441772004303 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 441772004304 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 441772004305 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004306 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004307 active site 441772004308 Zn binding site [ion binding]; other site 441772004309 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004310 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 441772004311 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004312 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004313 active site 441772004314 Zn binding site [ion binding]; other site 441772004315 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004316 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 441772004317 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004318 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004319 active site 441772004320 Zn binding site [ion binding]; other site 441772004321 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004322 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004323 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004324 active site 441772004325 Zn binding site [ion binding]; other site 441772004326 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004327 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 441772004328 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004329 active site 441772004330 Zn binding site [ion binding]; other site 441772004331 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 441772004332 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 441772004333 active site 441772004334 Zn binding site [ion binding]; other site 441772004335 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 441772004336 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 441772004337 dimerization interface [polypeptide binding]; other site 441772004338 active site 441772004339 L-aspartate oxidase; Provisional; Region: PRK06175 441772004340 FAD binding domain; Region: FAD_binding_2; pfam00890 441772004341 Quinolinate synthetase A protein; Region: NadA; pfam02445 441772004342 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 441772004343 metal binding site [ion binding]; metal-binding site 441772004344 Haemolysin-III related; Region: HlyIII; cl03831 441772004345 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 441772004346 GTP-binding protein YchF; Reviewed; Region: PRK09601 441772004347 YchF GTPase; Region: YchF; cd01900 441772004348 G1 box; other site 441772004349 GTP/Mg2+ binding site [chemical binding]; other site 441772004350 Switch I region; other site 441772004351 G2 box; other site 441772004352 Switch II region; other site 441772004353 G3 box; other site 441772004354 G4 box; other site 441772004355 G5 box; other site 441772004356 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 441772004357 cell division protein MraZ; Reviewed; Region: PRK00326 441772004358 MraZ protein; Region: MraZ; pfam02381 441772004359 MraZ protein; Region: MraZ; pfam02381 441772004360 MraW methylase family; Region: Methyltransf_5; pfam01795 441772004361 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 441772004362 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 441772004363 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772004364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 441772004365 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 441772004366 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 441772004367 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 441772004368 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772004369 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772004370 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772004371 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 441772004372 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772004373 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772004374 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772004375 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 441772004376 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 441772004377 Mg++ binding site [ion binding]; other site 441772004378 putative catalytic motif [active] 441772004379 putative substrate binding site [chemical binding]; other site 441772004380 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 441772004381 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 441772004382 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 441772004383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 441772004384 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 441772004385 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 441772004386 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 441772004387 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 441772004388 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772004389 catalytic residue [active] 441772004390 Protein of unknown function (DUF552); Region: DUF552; cl00775 441772004391 YGGT family; Region: YGGT; pfam02325 441772004392 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 441772004393 DivIVA protein; Region: DivIVA; pfam05103 441772004394 DivIVA domain; Region: DivI1A_domain; TIGR03544 441772004395 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 441772004396 active site 441772004397 dimer interface [polypeptide binding]; other site 441772004398 metal binding site [ion binding]; metal-binding site 441772004399 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 441772004400 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 441772004401 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13398 441772004402 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 441772004403 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 441772004404 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 441772004405 hinge; other site 441772004406 active site 441772004407 regulatory protein, yteA family; Region: bacill_yteA; TIGR02890 441772004408 lipoprotein signal peptidase; Provisional; Region: PRK14791 441772004409 lipoprotein signal peptidase; Provisional; Region: PRK14787 441772004410 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 441772004411 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 441772004412 RNA binding surface [nucleotide binding]; other site 441772004413 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 441772004414 active site 441772004415 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 441772004416 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772004417 active site 441772004418 uracil transporter; Provisional; Region: PRK10720 441772004419 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 441772004420 active site 441772004421 putative catalytic site [active] 441772004422 phosphate binding site A [ion binding]; other site 441772004423 DNA binding site [nucleotide binding] 441772004424 metal binding site A [ion binding]; metal-binding site 441772004425 putative AP binding site [nucleotide binding]; other site 441772004426 putative metal binding site B [ion binding]; other site 441772004427 phosphate binding site B [ion binding]; other site 441772004428 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 441772004429 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 441772004430 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; cl17173 441772004431 Carbonic anhydrase; Region: Pro_CA; smart00947 441772004432 active site clefts [active] 441772004433 zinc binding site [ion binding]; other site 441772004434 dimer interface [polypeptide binding]; other site 441772004435 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 441772004436 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 441772004437 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 441772004438 dimer interface [polypeptide binding]; other site 441772004439 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 441772004440 conserved gate region; other site 441772004441 putative PBP binding loops; other site 441772004442 ABC-ATPase subunit interface; other site 441772004443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004444 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 441772004445 Walker A/P-loop; other site 441772004446 ATP binding site [chemical binding]; other site 441772004447 Q-loop/lid; other site 441772004448 ABC transporter signature motif; other site 441772004449 Walker B; other site 441772004450 D-loop; other site 441772004451 H-loop/switch region; other site 441772004452 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 441772004453 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 441772004454 active site 441772004455 nucleophile elbow; other site 441772004456 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004457 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772004458 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 441772004459 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 441772004460 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 441772004461 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772004462 Uroporphyrinogen decarboxylase (URO-D); Region: URO-D; pfam01208 441772004463 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 441772004464 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 441772004465 B12 binding site [chemical binding]; other site 441772004466 cobalt ligand [ion binding]; other site 441772004467 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004468 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 441772004469 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772004470 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772004471 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 441772004472 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 441772004473 Walker A/P-loop; other site 441772004474 ATP binding site [chemical binding]; other site 441772004475 Q-loop/lid; other site 441772004476 ABC transporter signature motif; other site 441772004477 Walker B; other site 441772004478 D-loop; other site 441772004479 H-loop/switch region; other site 441772004480 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 441772004481 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 441772004482 dimer interface [polypeptide binding]; other site 441772004483 conserved gate region; other site 441772004484 ABC-ATPase subunit interface; other site 441772004485 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 441772004486 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 441772004487 MORN repeat; Region: MORN; cl14787 441772004488 MORN repeat; Region: MORN; cl14787 441772004489 MORN repeat; Region: MORN; cl14787 441772004490 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 441772004491 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 441772004492 active site 441772004493 FMN binding site [chemical binding]; other site 441772004494 substrate binding site [chemical binding]; other site 441772004495 putative catalytic residue [active] 441772004496 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 441772004497 dimer interface [polypeptide binding]; other site 441772004498 active site 441772004499 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 441772004500 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 441772004501 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 441772004502 [2Fe-2S] cluster binding site [ion binding]; other site 441772004503 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 441772004504 DNA topoisomerase III; Provisional; Region: PRK07726 441772004505 active site 441772004506 putative interdomain interaction site [polypeptide binding]; other site 441772004507 putative metal-binding site [ion binding]; other site 441772004508 putative nucleotide binding site [chemical binding]; other site 441772004509 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; cl11986 441772004510 domain I; other site 441772004511 DNA binding groove [nucleotide binding] 441772004512 phosphate binding site [ion binding]; other site 441772004513 domain II; other site 441772004514 domain III; other site 441772004515 nucleotide binding site [chemical binding]; other site 441772004516 catalytic site [active] 441772004517 domain IV; other site 441772004518 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 441772004519 Walker A/P-loop; other site 441772004520 ATP binding site [chemical binding]; other site 441772004521 Q-loop/lid; other site 441772004522 ABC transporter signature motif; other site 441772004523 Walker B; other site 441772004524 D-loop; other site 441772004525 H-loop/switch region; other site 441772004526 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 441772004527 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 441772004528 active site 441772004529 catalytic tetrad [active] 441772004530 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 441772004531 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 441772004532 putative deacylase active site [active] 441772004533 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772004534 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772004535 Walker A/P-loop; other site 441772004536 ATP binding site [chemical binding]; other site 441772004537 Q-loop/lid; other site 441772004538 ABC transporter signature motif; other site 441772004539 Walker B; other site 441772004540 D-loop; other site 441772004541 H-loop/switch region; other site 441772004542 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772004543 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772004544 FtsX-like permease family; Region: FtsX; pfam02687 441772004545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772004546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772004547 Protein of unknown function (DUF523); Region: DUF523; pfam04463 441772004548 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 441772004549 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 441772004550 Walker A/P-loop; other site 441772004551 ATP binding site [chemical binding]; other site 441772004552 Q-loop/lid; other site 441772004553 ABC transporter signature motif; other site 441772004554 Walker B; other site 441772004555 D-loop; other site 441772004556 H-loop/switch region; other site 441772004557 TOBE domain; Region: TOBE; pfam03459 441772004558 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 441772004559 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 441772004560 dimer interface [polypeptide binding]; other site 441772004561 conserved gate region; other site 441772004562 putative PBP binding loops; other site 441772004563 ABC-ATPase subunit interface; other site 441772004564 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 441772004565 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 441772004566 dimer interface [polypeptide binding]; other site 441772004567 conserved gate region; other site 441772004568 putative PBP binding loops; other site 441772004569 ABC-ATPase subunit interface; other site 441772004570 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 441772004571 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 441772004572 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 441772004573 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 441772004574 NAD binding site [chemical binding]; other site 441772004575 dimer interface [polypeptide binding]; other site 441772004576 substrate binding site [chemical binding]; other site 441772004577 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772004578 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772004579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772004580 DNA-binding site [nucleotide binding]; DNA binding site 441772004581 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 441772004582 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 441772004583 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 441772004584 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 441772004585 gating phenylalanine in ion channel; other site 441772004586 PAS domain S-box; Region: sensory_box; TIGR00229 441772004587 PAS domain; Region: PAS; smart00091 441772004588 putative active site [active] 441772004589 heme pocket [chemical binding]; other site 441772004590 PAS domain S-box; Region: sensory_box; TIGR00229 441772004591 PAS domain; Region: PAS_8; pfam13188 441772004592 putative active site [active] 441772004593 heme pocket [chemical binding]; other site 441772004594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772004595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772004596 metal binding site [ion binding]; metal-binding site 441772004597 active site 441772004598 I-site; other site 441772004599 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 441772004600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772004601 Zn2+ binding site [ion binding]; other site 441772004602 Mg2+ binding site [ion binding]; other site 441772004603 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 441772004604 dimerization interface [polypeptide binding]; other site 441772004605 Cache domain; Region: Cache_1; pfam02743 441772004606 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 441772004607 dimerization interface [polypeptide binding]; other site 441772004608 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004609 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004610 dimer interface [polypeptide binding]; other site 441772004611 putative CheW interface [polypeptide binding]; other site 441772004612 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772004613 MarR family; Region: MarR_2; pfam12802 441772004614 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 441772004615 Predicted transcriptional regulators [Transcription]; Region: COG1733 441772004616 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 441772004617 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772004618 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 441772004619 active site 441772004620 metal binding site [ion binding]; metal-binding site 441772004621 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 441772004622 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 441772004623 DNA binding site [nucleotide binding] 441772004624 active site 441772004625 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 441772004626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004627 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772004628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004629 hypothetical protein; Provisional; Region: PRK02399 441772004630 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 441772004631 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 441772004632 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772004633 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 441772004634 non-specific DNA binding site [nucleotide binding]; other site 441772004635 salt bridge; other site 441772004636 sequence-specific DNA binding site [nucleotide binding]; other site 441772004637 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772004638 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772004639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772004640 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772004641 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772004642 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772004643 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772004644 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 441772004645 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 441772004646 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 441772004647 putative substrate translocation pore; other site 441772004648 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 441772004649 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 441772004650 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 441772004651 HDOD domain; Region: HDOD; pfam08668 441772004652 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772004653 Zn2+ binding site [ion binding]; other site 441772004654 Mg2+ binding site [ion binding]; other site 441772004655 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772004656 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772004657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772004658 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772004659 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 441772004660 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772004661 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 441772004662 active site 441772004663 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772004664 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772004665 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 441772004666 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 441772004667 ligand binding site [chemical binding]; other site 441772004668 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 441772004669 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772004670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004671 Walker A/P-loop; other site 441772004672 ATP binding site [chemical binding]; other site 441772004673 Q-loop/lid; other site 441772004674 ABC transporter signature motif; other site 441772004675 Walker B; other site 441772004676 D-loop; other site 441772004677 H-loop/switch region; other site 441772004678 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 441772004679 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 441772004680 ABC-2 type transporter; Region: ABC2_membrane; cl17235 441772004681 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 441772004682 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 441772004683 AAA ATPase domain; Region: AAA_16; pfam13191 441772004684 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 441772004685 DNA binding residues [nucleotide binding] 441772004686 dimerization interface [polypeptide binding]; other site 441772004687 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 441772004688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 441772004689 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772004690 HTH domain; Region: HTH_11; pfam08279 441772004691 WYL domain; Region: WYL; pfam13280 441772004692 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 441772004693 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772004694 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 441772004695 active site 441772004696 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 441772004697 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 441772004698 FeS/SAM binding site; other site 441772004699 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 441772004700 active site 441772004701 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 441772004702 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 441772004703 Ligand Binding Site [chemical binding]; other site 441772004704 CAAX protease self-immunity; Region: Abi; pfam02517 441772004705 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772004706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772004707 dimer interface [polypeptide binding]; other site 441772004708 putative CheW interface [polypeptide binding]; other site 441772004709 Protein of unknown function (DUF975); Region: DUF975; cl10504 441772004710 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772004711 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 441772004712 DNA binding residues [nucleotide binding] 441772004713 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772004714 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 441772004715 intersubunit interface [polypeptide binding]; other site 441772004716 active site 441772004717 catalytic residue [active] 441772004718 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772004719 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 441772004720 substrate binding site [chemical binding]; other site 441772004721 dimer interface [polypeptide binding]; other site 441772004722 ATP binding site [chemical binding]; other site 441772004723 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 441772004724 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...; Region: HisRS-like_core; cd00773 441772004725 dimer interface [polypeptide binding]; other site 441772004726 motif 1; other site 441772004727 active site 441772004728 motif 2; other site 441772004729 motif 3; other site 441772004730 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 441772004731 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 441772004732 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 441772004733 histidinol dehydrogenase; Region: hisD; TIGR00069 441772004734 NAD binding site [chemical binding]; other site 441772004735 dimerization interface [polypeptide binding]; other site 441772004736 product binding site; other site 441772004737 substrate binding site [chemical binding]; other site 441772004738 zinc binding site [ion binding]; other site 441772004739 catalytic residues [active] 441772004740 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 441772004741 putative active site pocket [active] 441772004742 4-fold oligomerization interface [polypeptide binding]; other site 441772004743 metal binding residues [ion binding]; metal-binding site 441772004744 3-fold/trimer interface [polypeptide binding]; other site 441772004745 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 441772004746 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 441772004747 putative active site [active] 441772004748 oxyanion strand; other site 441772004749 catalytic triad [active] 441772004750 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 441772004751 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 441772004752 catalytic residues [active] 441772004753 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 441772004754 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 441772004755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004756 homodimer interface [polypeptide binding]; other site 441772004757 catalytic residue [active] 441772004758 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 441772004759 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 441772004760 substrate binding site [chemical binding]; other site 441772004761 glutamase interaction surface [polypeptide binding]; other site 441772004762 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 441772004763 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 441772004764 CPxP motif; other site 441772004765 putative inner membrane protein; Provisional; Region: PRK11099 441772004766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772004767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772004768 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 441772004769 dimerization interface [polypeptide binding]; other site 441772004770 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772004771 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772004772 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 441772004773 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772004774 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772004775 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772004776 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 441772004777 active site residue [active] 441772004778 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 441772004779 Sulphur transport; Region: Sulf_transp; pfam04143 441772004780 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772004781 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 441772004782 Walker A/P-loop; other site 441772004783 ATP binding site [chemical binding]; other site 441772004784 Q-loop/lid; other site 441772004785 ABC transporter signature motif; other site 441772004786 Walker B; other site 441772004787 D-loop; other site 441772004788 H-loop/switch region; other site 441772004789 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 441772004790 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772004791 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 441772004792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004793 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 441772004794 active site 441772004795 phosphorylation site [posttranslational modification] 441772004796 intermolecular recognition site; other site 441772004797 dimerization interface [polypeptide binding]; other site 441772004798 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 441772004799 DNA binding site [nucleotide binding] 441772004800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772004801 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 441772004802 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 441772004803 dimer interface [polypeptide binding]; other site 441772004804 phosphorylation site [posttranslational modification] 441772004805 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 441772004806 ATP binding site [chemical binding]; other site 441772004807 Mg2+ binding site [ion binding]; other site 441772004808 G-X-G motif; other site 441772004809 arginine deiminase; Provisional; Region: PRK01388 441772004810 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 441772004811 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 441772004812 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 441772004813 HD domain; Region: HD_3; pfam13023 441772004814 YmaF family; Region: YmaF; pfam12788 441772004815 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 441772004816 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 441772004817 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 441772004818 ATP binding site [chemical binding]; other site 441772004819 putative Mg++ binding site [ion binding]; other site 441772004820 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 441772004821 nucleotide binding region [chemical binding]; other site 441772004822 ATP-binding site [chemical binding]; other site 441772004823 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772004824 synthetase active site [active] 441772004825 NTP binding site [chemical binding]; other site 441772004826 metal binding site [ion binding]; metal-binding site 441772004827 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 441772004828 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772004829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772004830 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772004831 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772004832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004833 Walker A/P-loop; other site 441772004834 ATP binding site [chemical binding]; other site 441772004835 Q-loop/lid; other site 441772004836 ABC transporter signature motif; other site 441772004837 Walker B; other site 441772004838 D-loop; other site 441772004839 H-loop/switch region; other site 441772004840 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772004841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772004842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772004843 Walker A/P-loop; other site 441772004844 ATP binding site [chemical binding]; other site 441772004845 Q-loop/lid; other site 441772004846 ABC transporter signature motif; other site 441772004847 Walker B; other site 441772004848 D-loop; other site 441772004849 H-loop/switch region; other site 441772004850 Transcriptional regulators [Transcription]; Region: PurR; COG1609 441772004851 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 441772004852 DNA binding site [nucleotide binding] 441772004853 domain linker motif; other site 441772004854 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 441772004855 putative dimerization interface [polypeptide binding]; other site 441772004856 putative ligand binding site [chemical binding]; other site 441772004857 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 441772004858 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772004859 nucleotide binding site [chemical binding]; other site 441772004860 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 441772004861 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 441772004862 Ca binding site [ion binding]; other site 441772004863 active site 441772004864 catalytic site [active] 441772004865 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772004866 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 441772004867 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 441772004868 active site turn [active] 441772004869 phosphorylation site [posttranslational modification] 441772004870 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 441772004871 putative catalytic site [active] 441772004872 putative metal binding site [ion binding]; other site 441772004873 putative phosphate binding site [ion binding]; other site 441772004874 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 441772004875 Domain of unknown function DUF; Region: DUF204; pfam02659 441772004876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 441772004877 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 441772004878 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772004879 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 441772004880 dimer interface [polypeptide binding]; other site 441772004881 phosphorylation site [posttranslational modification] 441772004882 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 441772004883 ATP binding site [chemical binding]; other site 441772004884 Mg2+ binding site [ion binding]; other site 441772004885 G-X-G motif; other site 441772004886 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772004887 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 441772004888 active site 441772004889 phosphorylation site [posttranslational modification] 441772004890 intermolecular recognition site; other site 441772004891 dimerization interface [polypeptide binding]; other site 441772004892 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 441772004893 DNA binding site [nucleotide binding] 441772004894 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 441772004895 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 441772004896 putative substrate translocation pore; other site 441772004897 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 441772004898 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772004899 active site 441772004900 motif I; other site 441772004901 motif II; other site 441772004902 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 441772004903 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772004904 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 441772004905 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 441772004906 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772004907 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 441772004908 DNA binding residues [nucleotide binding] 441772004909 YvrJ protein family; Region: YvrJ; pfam12841 441772004910 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 441772004911 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772004912 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 441772004913 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004914 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004915 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 441772004916 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 441772004917 FAD binding site [chemical binding]; other site 441772004918 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 441772004919 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 441772004920 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 441772004921 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 441772004922 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 441772004923 substrate binding pocket [chemical binding]; other site 441772004924 dimer interface [polypeptide binding]; other site 441772004925 inhibitor binding site; inhibition site 441772004926 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 441772004927 B12 binding site [chemical binding]; other site 441772004928 hypothetical protein; Provisional; Region: PRK12705 441772004929 RNA polymerase factor sigma-70; Validated; Region: PRK06811 441772004930 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 441772004931 DNA binding residues [nucleotide binding] 441772004932 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 441772004933 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 441772004934 GAF domain; Region: GAF; pfam01590 441772004935 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 441772004936 Walker A motif; other site 441772004937 ATP binding site [chemical binding]; other site 441772004938 Walker B motif; other site 441772004939 arginine finger; other site 441772004940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772004941 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 441772004942 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 441772004943 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 441772004944 tetramer interface [polypeptide binding]; other site 441772004945 TPP-binding site [chemical binding]; other site 441772004946 heterodimer interface [polypeptide binding]; other site 441772004947 phosphorylation loop region [posttranslational modification] 441772004948 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 441772004949 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 441772004950 alpha subunit interface [polypeptide binding]; other site 441772004951 TPP binding site [chemical binding]; other site 441772004952 heterodimer interface [polypeptide binding]; other site 441772004953 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772004954 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 441772004955 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 441772004956 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 441772004957 E3 interaction surface; other site 441772004958 lipoyl attachment site [posttranslational modification]; other site 441772004959 e3 binding domain; Region: E3_binding; pfam02817 441772004960 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 441772004961 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 441772004962 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772004963 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772004964 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 441772004965 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 441772004966 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 441772004967 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 441772004968 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 441772004969 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 441772004970 Walker A/P-loop; other site 441772004971 ATP binding site [chemical binding]; other site 441772004972 Q-loop/lid; other site 441772004973 ABC transporter signature motif; other site 441772004974 Walker B; other site 441772004975 D-loop; other site 441772004976 H-loop/switch region; other site 441772004977 FOG: CBS domain [General function prediction only]; Region: COG0517 441772004978 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 441772004979 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 441772004980 dimer interface [polypeptide binding]; other site 441772004981 conserved gate region; other site 441772004982 putative PBP binding loops; other site 441772004983 ABC-ATPase subunit interface; other site 441772004984 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 441772004985 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 441772004986 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 441772004987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772004988 catalytic residue [active] 441772004989 homoserine kinase; Provisional; Region: PRK01212 441772004990 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 441772004991 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 441772004992 aspartate kinase; Reviewed; Region: PRK09034 441772004993 nucleotide binding site [chemical binding]; other site 441772004994 substrate binding site [chemical binding]; other site 441772004995 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 441772004996 allosteric regulatory residue; other site 441772004997 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 441772004998 homoserine dehydrogenase; Provisional; Region: PRK06349 441772004999 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 441772005000 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 441772005001 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 441772005002 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772005003 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 441772005004 putative active site [active] 441772005005 heme pocket [chemical binding]; other site 441772005006 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 441772005007 Walker A motif; other site 441772005008 ATP binding site [chemical binding]; other site 441772005009 Walker B motif; other site 441772005010 arginine finger; other site 441772005011 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772005012 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 441772005013 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 441772005014 putative active site [active] 441772005015 metal binding site [ion binding]; metal-binding site 441772005016 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 441772005017 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 441772005018 FAD binding pocket [chemical binding]; other site 441772005019 FAD binding motif [chemical binding]; other site 441772005020 phosphate binding motif [ion binding]; other site 441772005021 beta-alpha-beta structure motif; other site 441772005022 NAD binding pocket [chemical binding]; other site 441772005023 Iron coordination center [ion binding]; other site 441772005024 putative oxidoreductase; Provisional; Region: PRK12831 441772005025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772005026 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 441772005027 PAS domain; Region: PAS; smart00091 441772005028 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 441772005029 Walker A motif; other site 441772005030 ATP binding site [chemical binding]; other site 441772005031 Walker B motif; other site 441772005032 arginine finger; other site 441772005033 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772005034 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 441772005035 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 441772005036 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 441772005037 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 441772005038 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 441772005039 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; cl02713 441772005040 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 441772005041 Hemerythrin-like domain; Region: Hr-like; cd12108 441772005042 Fe binding site [ion binding]; other site 441772005043 alanine racemase; Reviewed; Region: alr; PRK00053 441772005044 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 441772005045 active site 441772005046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772005047 dimer interface [polypeptide binding]; other site 441772005048 substrate binding site [chemical binding]; other site 441772005049 catalytic residues [active] 441772005050 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772005051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005052 dimer interface [polypeptide binding]; other site 441772005053 putative CheW interface [polypeptide binding]; other site 441772005054 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 441772005055 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772005056 Protein of unknown function (DUF975); Region: DUF975; cl10504 441772005057 short chain dehydrogenase; Provisional; Region: PRK06701 441772005058 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 441772005059 NAD binding site [chemical binding]; other site 441772005060 metal binding site [ion binding]; metal-binding site 441772005061 active site 441772005062 Cache domain; Region: Cache_1; pfam02743 441772005063 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772005064 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005065 dimer interface [polypeptide binding]; other site 441772005066 putative CheW interface [polypeptide binding]; other site 441772005067 KWG Leptospira; Region: KWG; pfam07656 441772005068 KWG Leptospira; Region: KWG; pfam07656 441772005069 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 441772005070 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 441772005071 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 441772005072 ATP binding site [chemical binding]; other site 441772005073 putative Mg++ binding site [ion binding]; other site 441772005074 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 441772005075 nucleotide binding region [chemical binding]; other site 441772005076 ATP-binding site [chemical binding]; other site 441772005077 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 441772005078 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772005079 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 441772005080 putative substrate translocation pore; other site 441772005081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772005082 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772005083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005084 Walker A/P-loop; other site 441772005085 ATP binding site [chemical binding]; other site 441772005086 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772005087 active site 441772005088 catalytic site [active] 441772005089 substrate binding site [chemical binding]; other site 441772005090 Predicted secreted protein [Function unknown]; Region: COG4086 441772005091 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 441772005092 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772005093 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 441772005094 S-adenosylmethionine binding site [chemical binding]; other site 441772005095 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 441772005096 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 441772005097 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772005098 putative substrate translocation pore; other site 441772005099 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772005100 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772005101 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 441772005102 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 441772005103 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 441772005104 putative substrate binding site [chemical binding]; other site 441772005105 putative ATP binding site [chemical binding]; other site 441772005106 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772005107 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 441772005108 putative substrate translocation pore; other site 441772005109 Putative amidase domain; Region: Amidase_6; pfam12671 441772005110 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 441772005111 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 441772005112 substrate binding site [chemical binding]; other site 441772005113 ATP binding site [chemical binding]; other site 441772005114 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772005115 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 441772005116 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 441772005117 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...; Region: CSP_CDS; cd04458 441772005118 DNA-binding site [nucleotide binding]; DNA binding site 441772005119 RNA-binding motif; other site 441772005120 Cache domain; Region: Cache_1; pfam02743 441772005121 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772005122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005123 dimer interface [polypeptide binding]; other site 441772005124 putative CheW interface [polypeptide binding]; other site 441772005125 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 441772005126 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005127 Pecanex protein (C-terminus); Region: Pecanex_C; pfam05041 441772005128 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005129 ABC transporter; Region: ABC_tran_2; pfam12848 441772005130 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005131 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 441772005132 putative deacylase active site [active] 441772005133 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 441772005134 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 441772005135 4Fe-4S binding domain; Region: Fer4_6; pfam12837 441772005136 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 441772005137 Response regulator receiver domain; Region: Response_reg; pfam00072 441772005138 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 441772005139 active site 441772005140 phosphorylation site [posttranslational modification] 441772005141 intermolecular recognition site; other site 441772005142 dimerization interface [polypeptide binding]; other site 441772005143 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; cl17251 441772005144 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772005145 ATP binding site [chemical binding]; other site 441772005146 putative Mg++ binding site [ion binding]; other site 441772005147 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 441772005148 nucleotide binding region [chemical binding]; other site 441772005149 ATP-binding site [chemical binding]; other site 441772005150 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 441772005151 S1 domain; Region: S1_2; pfam13509 441772005152 S1 domain; Region: S1_2; pfam13509 441772005153 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 441772005154 RNA binding site [nucleotide binding]; other site 441772005155 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 441772005156 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 441772005157 ATP binding site [chemical binding]; other site 441772005158 Mg++ binding site [ion binding]; other site 441772005159 motif III; other site 441772005160 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 441772005161 nucleotide binding region [chemical binding]; other site 441772005162 ATP-binding site [chemical binding]; other site 441772005163 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 441772005164 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772005165 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005166 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005167 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005168 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005169 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 441772005170 Leucine rich repeat; Region: LRR_8; pfam13855 441772005171 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005172 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005173 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005174 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 441772005175 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 441772005176 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 441772005177 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 441772005178 Ferritin-like domain; Region: Ferritin; pfam00210 441772005179 ferroxidase diiron center [ion binding]; other site 441772005180 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772005181 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 441772005182 active site 441772005183 phosphorylation site [posttranslational modification] 441772005184 intermolecular recognition site; other site 441772005185 dimerization interface [polypeptide binding]; other site 441772005186 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 441772005187 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 441772005188 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 441772005189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 441772005190 Nucleoside recognition; Region: Gate; pfam07670 441772005191 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772005192 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772005193 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 441772005194 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 441772005195 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 441772005196 active site 441772005197 DNA binding site [nucleotide binding] 441772005198 Int/Topo IB signature motif; other site 441772005199 LexA repressor; Validated; Region: PRK00215 441772005200 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 441772005201 putative Zn2+ binding site [ion binding]; other site 441772005202 putative DNA binding site [nucleotide binding]; other site 441772005203 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 441772005204 Catalytic site [active] 441772005205 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 441772005206 Aluminium resistance protein; Region: Alum_res; pfam06838 441772005207 bacterial Hfq-like; Region: Hfq; cd01716 441772005208 hexamer interface [polypeptide binding]; other site 441772005209 Sm1 motif; other site 441772005210 RNA binding site [nucleotide binding]; other site 441772005211 Sm2 motif; other site 441772005212 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 441772005213 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 441772005214 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 441772005215 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 441772005216 ATP binding site [chemical binding]; other site 441772005217 Mg2+ binding site [ion binding]; other site 441772005218 G-X-G motif; other site 441772005219 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 441772005220 ATP binding site [chemical binding]; other site 441772005221 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 441772005222 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 441772005223 MutS domain I; Region: MutS_I; pfam01624 441772005224 MutS domain II; Region: MutS_II; pfam05188 441772005225 MutS domain III; Region: MutS_III; pfam05192 441772005226 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 441772005227 Walker A/P-loop; other site 441772005228 ATP binding site [chemical binding]; other site 441772005229 Q-loop/lid; other site 441772005230 ABC transporter signature motif; other site 441772005231 Walker B; other site 441772005232 D-loop; other site 441772005233 H-loop/switch region; other site 441772005234 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 441772005235 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772005236 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 441772005237 FeS/SAM binding site; other site 441772005238 TRAM domain; Region: TRAM; pfam01938 441772005239 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 441772005240 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 441772005241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005242 homodimer interface [polypeptide binding]; other site 441772005243 catalytic residue [active] 441772005244 aspartate aminotransferase; Provisional; Region: PRK07568 441772005245 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 441772005246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005247 homodimer interface [polypeptide binding]; other site 441772005248 catalytic residue [active] 441772005249 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772005250 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772005251 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 441772005252 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 441772005253 LytB protein; Region: LYTB; cl00507 441772005254 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 441772005255 RNA binding site [nucleotide binding]; other site 441772005256 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 441772005257 RNA binding site [nucleotide binding]; other site 441772005258 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 441772005259 RNA binding site [nucleotide binding]; other site 441772005260 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 441772005261 RNA binding site [nucleotide binding]; other site 441772005262 domain interface; other site 441772005263 cytidylate kinase; Provisional; Region: cmk; PRK00023 441772005264 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 441772005265 CMP-binding site; other site 441772005266 The sites determining sugar specificity; other site 441772005267 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 441772005268 homotrimer interaction site [polypeptide binding]; other site 441772005269 active site 441772005270 flavoprotein, HI0933 family; Region: TIGR00275 441772005271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772005272 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 441772005273 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 441772005274 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 441772005275 NAD(P) binding site [chemical binding]; other site 441772005276 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772005277 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772005278 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 441772005279 putative active site [active] 441772005280 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 441772005281 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 441772005282 RNA binding surface [nucleotide binding]; other site 441772005283 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 441772005284 active site 441772005285 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 441772005286 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005287 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 441772005288 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 441772005289 DXD motif; other site 441772005290 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 441772005291 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 441772005292 dimerization interface [polypeptide binding]; other site 441772005293 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005294 dimer interface [polypeptide binding]; other site 441772005295 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 441772005296 putative CheW interface [polypeptide binding]; other site 441772005297 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 441772005298 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 441772005299 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 441772005300 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 441772005301 catalytic residues [active] 441772005302 Predicted amidohydrolase [General function prediction only]; Region: COG0388 441772005303 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 441772005304 putative active site [active] 441772005305 catalytic triad [active] 441772005306 dimer interface [polypeptide binding]; other site 441772005307 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 441772005308 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772005309 TrkA-C domain; Region: TrkA_C; pfam02080 441772005310 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 441772005311 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772005312 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772005313 Coenzyme A binding pocket [chemical binding]; other site 441772005314 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 441772005315 active site residue [active] 441772005316 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 441772005317 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 441772005318 dimer interface [polypeptide binding]; other site 441772005319 [2Fe-2S] cluster binding site [ion binding]; other site 441772005320 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005321 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 441772005322 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005323 Putative Fe-S cluster; Region: FeS; cl17515 441772005324 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 441772005325 putative active site [active] 441772005326 heme pocket [chemical binding]; other site 441772005327 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 441772005328 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005329 4Fe-4S binding domain; Region: Fer4; pfam00037 441772005330 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005331 Putative Fe-S cluster; Region: FeS; cl17515 441772005332 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 441772005333 putative active site [active] 441772005334 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 441772005335 dimerization interface [polypeptide binding]; other site 441772005336 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 441772005337 ATP binding site [chemical binding]; other site 441772005338 Hydrogenase formation hypA family; Region: HypD; pfam01924 441772005339 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 441772005340 HupF/HypC family; Region: HupF_HypC; pfam01455 441772005341 Acylphosphatase; Region: Acylphosphatase; pfam00708 441772005342 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 441772005343 HypF finger; Region: zf-HYPF; pfam07503 441772005344 HypF finger; Region: zf-HYPF; pfam07503 441772005345 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 441772005346 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 441772005347 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 441772005348 nickel binding site [ion binding]; other site 441772005349 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 441772005350 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 441772005351 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 441772005352 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 441772005353 TraX protein; Region: TraX; pfam05857 441772005354 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 441772005355 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772005356 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 441772005357 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 441772005358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772005359 ATP-grasp domain; Region: ATP-grasp_4; cl17255 441772005360 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 441772005361 IMP binding site; other site 441772005362 dimer interface [polypeptide binding]; other site 441772005363 interdomain contacts; other site 441772005364 partial ornithine binding site; other site 441772005365 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 441772005366 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 441772005367 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 441772005368 catalytic site [active] 441772005369 subunit interface [polypeptide binding]; other site 441772005370 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 441772005371 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 441772005372 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772005373 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005375 Walker A/P-loop; other site 441772005376 ATP binding site [chemical binding]; other site 441772005377 Q-loop/lid; other site 441772005378 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005379 ABC transporter signature motif; other site 441772005380 ABC transporter; Region: ABC_tran_2; pfam12848 441772005381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772005382 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 441772005383 catalytic loop [active] 441772005384 iron binding site [ion binding]; other site 441772005385 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 441772005386 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 441772005387 4Fe-4S binding domain; Region: Fer4; pfam00037 441772005388 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772005389 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 441772005390 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 441772005391 dimer interface [polypeptide binding]; other site 441772005392 [2Fe-2S] cluster binding site [ion binding]; other site 441772005393 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 441772005394 SLBB domain; Region: SLBB; pfam10531 441772005395 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 441772005396 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 441772005397 4Fe-4S binding domain; Region: Fer4; pfam00037 441772005398 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 441772005399 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 441772005400 putative dimer interface [polypeptide binding]; other site 441772005401 [2Fe-2S] cluster binding site [ion binding]; other site 441772005402 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 441772005403 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 441772005404 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 441772005405 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772005406 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 441772005407 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 441772005408 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 441772005409 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 441772005410 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 441772005411 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 441772005412 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 441772005413 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 441772005414 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 441772005415 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 441772005416 EcsC protein family; Region: EcsC; pfam12787 441772005417 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 441772005418 putative catalytic site [active] 441772005419 putative metal binding site [ion binding]; other site 441772005420 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 441772005421 putative catalytic site [active] 441772005422 putative phosphate binding site [ion binding]; other site 441772005423 putative phosphate binding site [ion binding]; other site 441772005424 putative metal binding site [ion binding]; other site 441772005425 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 441772005426 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 441772005427 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 441772005428 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 441772005429 purine nucleoside phosphorylase; Provisional; Region: PRK08202 441772005430 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 441772005431 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 441772005432 Int/Topo IB signature motif; other site 441772005433 active site 441772005434 stage II sporulation protein M; Region: spo_II_M; TIGR02831 441772005435 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 441772005436 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 441772005437 dimer interface [polypeptide binding]; other site 441772005438 ADP-ribose binding site [chemical binding]; other site 441772005439 active site 441772005440 nudix motif; other site 441772005441 metal binding site [ion binding]; metal-binding site 441772005442 inner membrane transporter YjeM; Provisional; Region: PRK15238 441772005443 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 441772005444 NlpC/P60 family; Region: NLPC_P60; pfam00877 441772005445 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 441772005446 DNA binding site [nucleotide binding] 441772005447 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 441772005448 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772005449 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 441772005450 active site 441772005451 metal binding site [ion binding]; metal-binding site 441772005452 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772005453 Haemolysin XhlA; Region: XhlA; pfam10779 441772005454 Phage tail protein; Region: Sipho_tail; cl17486 441772005455 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 441772005456 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 441772005457 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 441772005458 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 441772005459 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 441772005460 oligomerization interface [polypeptide binding]; other site 441772005461 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 441772005462 Phage capsid family; Region: Phage_capsid; pfam05065 441772005463 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 441772005464 oligomer interface [polypeptide binding]; other site 441772005465 active site residues [active] 441772005466 Phage portal protein; Region: Phage_portal; pfam04860 441772005467 Phage-related protein [Function unknown]; Region: COG4695 441772005468 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 441772005469 Phage terminase, small subunit; Region: Terminase_4; pfam05119 441772005470 Predicted ATPase [General function prediction only]; Region: COG5293 441772005471 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 441772005472 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 441772005473 N-terminal catalytic domain of GIY-YIG intron endonuclease I-TevI, I-BmoI, I-BanI, I-BthII and similar proteins; Region: GIY-YIG_HE_I-TevI_like; cd10437 441772005474 putative active site [active] 441772005475 catalytic site [active] 441772005476 putative metal binding site [ion binding]; other site 441772005477 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_HprK; cl00270 441772005478 metal-binding site [ion binding] 441772005479 YcfA-like protein; Region: YcfA; pfam07927 441772005480 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 441772005481 non-specific DNA binding site [nucleotide binding]; other site 441772005482 salt bridge; other site 441772005483 sequence-specific DNA binding site [nucleotide binding]; other site 441772005484 Helix-turn-helix domain; Region: HTH_36; pfam13730 441772005485 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772005486 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 441772005487 active site 441772005488 metal binding site [ion binding]; metal-binding site 441772005489 Helix-turn-helix domain; Region: HTH_36; pfam13730 441772005490 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 441772005491 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 441772005492 active site 441772005493 Int/Topo IB signature motif; other site 441772005494 DNA binding site [nucleotide binding] 441772005495 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 441772005496 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 441772005497 active site 441772005498 phosphorylation site [posttranslational modification] 441772005499 intermolecular recognition site; other site 441772005500 dimerization interface [polypeptide binding]; other site 441772005501 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 441772005502 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 441772005503 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 441772005504 Homoserine O-succinyltransferase; Region: HTS; pfam04204 441772005505 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 441772005506 conserved cys residue [active] 441772005507 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 441772005508 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 441772005509 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 441772005510 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 441772005511 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 441772005512 homodimer interface [polypeptide binding]; other site 441772005513 substrate-cofactor binding pocket; other site 441772005514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005515 catalytic residue [active] 441772005516 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 441772005517 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 441772005518 Walker A/P-loop; other site 441772005519 ATP binding site [chemical binding]; other site 441772005520 Q-loop/lid; other site 441772005521 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 441772005522 ABC transporter signature motif; other site 441772005523 Walker B; other site 441772005524 D-loop; other site 441772005525 H-loop/switch region; other site 441772005526 arginine repressor; Provisional; Region: argR; PRK00441 441772005527 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 441772005528 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 441772005529 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 441772005530 ATP-NAD kinase; Region: NAD_kinase; pfam01513 441772005531 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 441772005532 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 441772005533 RNA binding surface [nucleotide binding]; other site 441772005534 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 441772005535 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 441772005536 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 441772005537 TPP-binding site; other site 441772005538 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 441772005539 PYR/PP interface [polypeptide binding]; other site 441772005540 dimer interface [polypeptide binding]; other site 441772005541 TPP binding site [chemical binding]; other site 441772005542 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772005543 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 441772005544 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 441772005545 substrate binding pocket [chemical binding]; other site 441772005546 chain length determination region; other site 441772005547 substrate-Mg2+ binding site; other site 441772005548 catalytic residues [active] 441772005549 aspartate-rich region 1; other site 441772005550 active site lid residues [active] 441772005551 aspartate-rich region 2; other site 441772005552 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 441772005553 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 441772005554 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 441772005555 generic binding surface I; other site 441772005556 generic binding surface II; other site 441772005557 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 441772005558 Asp23 family; Region: Asp23; pfam03780 441772005559 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 441772005560 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 441772005561 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 441772005562 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 441772005563 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 441772005564 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 441772005565 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 441772005566 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 441772005567 elongation factor P; Validated; Region: PRK00529 441772005568 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 441772005569 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 441772005570 RNA binding site [nucleotide binding]; other site 441772005571 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 441772005572 RNA binding site [nucleotide binding]; other site 441772005573 Dehydroquinase class II; Region: DHquinase_II; pfam01220 441772005574 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 441772005575 trimer interface [polypeptide binding]; other site 441772005576 active site 441772005577 dimer interface [polypeptide binding]; other site 441772005578 shikimate kinase; Reviewed; Region: aroK; PRK00131 441772005579 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 441772005580 ADP binding site [chemical binding]; other site 441772005581 magnesium binding site [ion binding]; other site 441772005582 putative shikimate binding site; other site 441772005583 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005584 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 441772005585 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005586 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 441772005587 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 441772005588 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 441772005589 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 441772005590 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 441772005591 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 441772005592 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 441772005593 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 441772005594 Walker A motif; other site 441772005595 ATP binding site [chemical binding]; other site 441772005596 Walker B motif; other site 441772005597 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 441772005598 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 441772005599 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 441772005600 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 441772005601 Domain of unknown function (DUF814); Region: DUF814; pfam05670 441772005602 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 441772005603 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 441772005604 dimerization interface 3.5A [polypeptide binding]; other site 441772005605 active site 441772005606 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 441772005607 nucleotide binding site/active site [active] 441772005608 HIT family signature motif; other site 441772005609 catalytic residue [active] 441772005610 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 441772005611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005612 catalytic residue [active] 441772005613 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772005614 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772005615 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 441772005616 dimerization interface [polypeptide binding]; other site 441772005617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005618 dimer interface [polypeptide binding]; other site 441772005619 putative CheW interface [polypeptide binding]; other site 441772005620 clostripain; Region: clostrip; TIGR02806 441772005621 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 441772005622 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005623 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 441772005624 active site 441772005625 phosphorylation site [posttranslational modification] 441772005626 intermolecular recognition site; other site 441772005627 dimerization interface [polypeptide binding]; other site 441772005628 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 441772005629 DNA binding site [nucleotide binding] 441772005630 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772005631 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 441772005632 dimer interface [polypeptide binding]; other site 441772005633 phosphorylation site [posttranslational modification] 441772005634 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 441772005635 ATP binding site [chemical binding]; other site 441772005636 Mg2+ binding site [ion binding]; other site 441772005637 G-X-G motif; other site 441772005638 methionine sulfoxide reductase A; Provisional; Region: PRK14054 441772005639 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772005640 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 441772005641 active site 441772005642 phosphorylation site [posttranslational modification] 441772005643 intermolecular recognition site; other site 441772005644 dimerization interface [polypeptide binding]; other site 441772005645 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772005646 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 441772005647 active site 441772005648 phosphorylation site [posttranslational modification] 441772005649 intermolecular recognition site; other site 441772005650 dimerization interface [polypeptide binding]; other site 441772005651 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 441772005652 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 441772005653 dimerization interface [polypeptide binding]; other site 441772005654 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 441772005655 dimer interface [polypeptide binding]; other site 441772005656 phosphorylation site [posttranslational modification] 441772005657 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 441772005658 ATP binding site [chemical binding]; other site 441772005659 Mg2+ binding site [ion binding]; other site 441772005660 G-X-G motif; other site 441772005661 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005662 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 441772005663 active site 441772005664 phosphorylation site [posttranslational modification] 441772005665 intermolecular recognition site; other site 441772005666 dimerization interface [polypeptide binding]; other site 441772005667 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 441772005668 DNA binding site [nucleotide binding] 441772005669 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772005670 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772005671 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 441772005672 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005673 Walker A/P-loop; other site 441772005674 ATP binding site [chemical binding]; other site 441772005675 Q-loop/lid; other site 441772005676 ABC transporter signature motif; other site 441772005677 Walker B; other site 441772005678 D-loop; other site 441772005679 H-loop/switch region; other site 441772005680 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005681 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772005682 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 441772005683 Walker A/P-loop; other site 441772005684 ATP binding site [chemical binding]; other site 441772005685 Q-loop/lid; other site 441772005686 ABC transporter signature motif; other site 441772005687 Walker B; other site 441772005688 D-loop; other site 441772005689 H-loop/switch region; other site 441772005690 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772005691 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 441772005692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005693 Walker A/P-loop; other site 441772005694 ATP binding site [chemical binding]; other site 441772005695 Q-loop/lid; other site 441772005696 ABC transporter signature motif; other site 441772005697 Walker B; other site 441772005698 D-loop; other site 441772005699 H-loop/switch region; other site 441772005700 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772005701 MarR family; Region: MarR; pfam01047 441772005702 MarR family; Region: MarR_2; cl17246 441772005703 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 441772005704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772005705 Coenzyme A binding pocket [chemical binding]; other site 441772005706 hypothetical protein; Provisional; Region: PRK08328 441772005707 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 441772005708 ATP binding site [chemical binding]; other site 441772005709 substrate interface [chemical binding]; other site 441772005710 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 441772005711 MoaE interaction surface [polypeptide binding]; other site 441772005712 MoeB interaction surface [polypeptide binding]; other site 441772005713 thiocarboxylated glycine; other site 441772005714 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 441772005715 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 441772005716 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 441772005717 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 441772005718 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 441772005719 putative active site [active] 441772005720 heme pocket [chemical binding]; other site 441772005721 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 441772005722 Walker A motif; other site 441772005723 ATP binding site [chemical binding]; other site 441772005724 Walker B motif; other site 441772005725 arginine finger; other site 441772005726 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772005727 MOSC domain; Region: MOSC; pfam03473 441772005728 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 441772005729 trimer interface [polypeptide binding]; other site 441772005730 dimer interface [polypeptide binding]; other site 441772005731 putative active site [active] 441772005732 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 441772005733 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 441772005734 FeS/SAM binding site; other site 441772005735 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 441772005736 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 441772005737 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 441772005738 dimer interface [polypeptide binding]; other site 441772005739 putative functional site; other site 441772005740 putative MPT binding site; other site 441772005741 PBP superfamily domain; Region: PBP_like; pfam12727 441772005742 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 441772005743 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 441772005744 dimer interface [polypeptide binding]; other site 441772005745 putative functional site; other site 441772005746 putative MPT binding site; other site 441772005747 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 441772005748 MPT binding site; other site 441772005749 trimer interface [polypeptide binding]; other site 441772005750 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 441772005751 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 441772005752 Walker A/P-loop; other site 441772005753 ATP binding site [chemical binding]; other site 441772005754 Q-loop/lid; other site 441772005755 ABC transporter signature motif; other site 441772005756 Walker B; other site 441772005757 D-loop; other site 441772005758 H-loop/switch region; other site 441772005759 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 441772005760 dimer interface [polypeptide binding]; other site 441772005761 conserved gate region; other site 441772005762 putative PBP binding loops; other site 441772005763 ABC-ATPase subunit interface; other site 441772005764 PBP superfamily domain; Region: PBP_like_2; pfam12849 441772005765 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 441772005766 putative efflux protein, MATE family; Region: matE; TIGR00797 441772005767 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 441772005768 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772005769 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772005770 Walker A/P-loop; other site 441772005771 ATP binding site [chemical binding]; other site 441772005772 Q-loop/lid; other site 441772005773 ABC transporter signature motif; other site 441772005774 Walker B; other site 441772005775 D-loop; other site 441772005776 H-loop/switch region; other site 441772005777 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772005778 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772005779 FtsX-like permease family; Region: FtsX; pfam02687 441772005780 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772005781 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005782 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 441772005783 Walker A/P-loop; other site 441772005784 ATP binding site [chemical binding]; other site 441772005785 Q-loop/lid; other site 441772005786 ABC transporter signature motif; other site 441772005787 Walker B; other site 441772005788 D-loop; other site 441772005789 H-loop/switch region; other site 441772005790 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772005791 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772005792 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005793 Walker A/P-loop; other site 441772005794 ATP binding site [chemical binding]; other site 441772005795 Q-loop/lid; other site 441772005796 ABC transporter signature motif; other site 441772005797 Walker B; other site 441772005798 D-loop; other site 441772005799 H-loop/switch region; other site 441772005800 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 441772005801 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772005802 DNA binding residues [nucleotide binding] 441772005803 dimer interface [polypeptide binding]; other site 441772005804 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772005805 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772005806 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772005807 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005808 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 441772005809 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005810 Leucine-rich repeats; other site 441772005811 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005812 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005813 M6 family metalloprotease domain; Region: M6dom_TIGR03296 441772005814 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 441772005815 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 441772005816 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772005817 Walker A motif; other site 441772005818 ATP binding site [chemical binding]; other site 441772005819 Walker B motif; other site 441772005820 arginine finger; other site 441772005821 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 441772005822 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 441772005823 homotrimer interaction site [polypeptide binding]; other site 441772005824 putative active site [active] 441772005825 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 441772005826 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 441772005827 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 441772005828 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 441772005829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772005830 homodimer interface [polypeptide binding]; other site 441772005831 catalytic residue [active] 441772005832 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005833 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 441772005834 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005835 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005836 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772005837 M6 family metalloprotease domain; Region: M6dom_TIGR03296 441772005838 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 441772005839 dimerization interface [polypeptide binding]; other site 441772005840 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772005841 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 441772005842 dimer interface [polypeptide binding]; other site 441772005843 phosphorylation site [posttranslational modification] 441772005844 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 441772005845 ATP binding site [chemical binding]; other site 441772005846 Mg2+ binding site [ion binding]; other site 441772005847 G-X-G motif; other site 441772005848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772005849 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 441772005850 active site 441772005851 phosphorylation site [posttranslational modification] 441772005852 intermolecular recognition site; other site 441772005853 dimerization interface [polypeptide binding]; other site 441772005854 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 441772005855 DNA binding site [nucleotide binding] 441772005856 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 441772005857 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 441772005858 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 441772005859 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 441772005860 Walker A/P-loop; other site 441772005861 ATP binding site [chemical binding]; other site 441772005862 Q-loop/lid; other site 441772005863 ABC transporter signature motif; other site 441772005864 Walker B; other site 441772005865 D-loop; other site 441772005866 H-loop/switch region; other site 441772005867 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 441772005868 Walker A/P-loop; other site 441772005869 ATP binding site [chemical binding]; other site 441772005870 Q-loop/lid; other site 441772005871 ABC transporter signature motif; other site 441772005872 Walker B; other site 441772005873 D-loop; other site 441772005874 H-loop/switch region; other site 441772005875 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 441772005876 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 441772005877 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 441772005878 dimer interface [polypeptide binding]; other site 441772005879 active site 441772005880 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772005881 substrate binding site [chemical binding]; other site 441772005882 catalytic residue [active] 441772005883 Spore germination protein; Region: Spore_permease; cl17796 441772005884 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772005885 Spore germination protein; Region: Spore_permease; cl17796 441772005886 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 441772005887 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 441772005888 Spore germination protein; Region: Spore_permease; cl17796 441772005889 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 441772005890 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 441772005891 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 441772005892 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 441772005893 FeS/SAM binding site; other site 441772005894 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 441772005895 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 441772005896 binding surface 441772005897 TPR repeat; Region: TPR_11; pfam13414 441772005898 TPR motif; other site 441772005899 TPR repeat; Region: TPR_11; pfam13414 441772005900 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 441772005901 binding surface 441772005902 TPR motif; other site 441772005903 TPR repeat; Region: TPR_11; pfam13414 441772005904 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 441772005905 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772005906 TrkA-C domain; Region: TrkA_C; pfam02080 441772005907 heat shock protein 90; Provisional; Region: PRK05218 441772005908 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 441772005909 ATP binding site [chemical binding]; other site 441772005910 Mg2+ binding site [ion binding]; other site 441772005911 G-X-G motif; other site 441772005912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772005913 Walker A/P-loop; other site 441772005914 ATP binding site [chemical binding]; other site 441772005915 Q-loop/lid; other site 441772005916 ABC transporter signature motif; other site 441772005917 Walker B; other site 441772005918 D-loop; other site 441772005919 H-loop/switch region; other site 441772005920 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 441772005921 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 441772005922 active site turn [active] 441772005923 phosphorylation site [posttranslational modification] 441772005924 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772005925 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 441772005926 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 441772005927 Ca binding site [ion binding]; other site 441772005928 active site 441772005929 catalytic site [active] 441772005930 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 441772005931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772005932 DNA-binding site [nucleotide binding]; DNA binding site 441772005933 UTRA domain; Region: UTRA; pfam07702 441772005934 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 441772005935 active site 441772005936 phosphorylation site [posttranslational modification] 441772005937 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 441772005938 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 441772005939 active site 441772005940 P-loop; other site 441772005941 phosphorylation site [posttranslational modification] 441772005942 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 441772005943 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 441772005944 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 441772005945 putative substrate binding site [chemical binding]; other site 441772005946 putative ATP binding site [chemical binding]; other site 441772005947 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 441772005948 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 441772005949 intersubunit interface [polypeptide binding]; other site 441772005950 active site 441772005951 zinc binding site [ion binding]; other site 441772005952 Na+ binding site [ion binding]; other site 441772005953 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 441772005954 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 441772005955 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 441772005956 putative active site [active] 441772005957 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 441772005958 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 441772005959 homotrimer interaction site [polypeptide binding]; other site 441772005960 putative active site [active] 441772005961 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 441772005962 Radical SAM superfamily; Region: Radical_SAM; pfam04055 441772005963 FeS/SAM binding site; other site 441772005964 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 441772005965 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 441772005966 dimer interface [polypeptide binding]; other site 441772005967 active site 441772005968 metal binding site [ion binding]; metal-binding site 441772005969 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 441772005970 dimerization interface [polypeptide binding]; other site 441772005971 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772005972 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772005973 dimer interface [polypeptide binding]; other site 441772005974 putative CheW interface [polypeptide binding]; other site 441772005975 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 441772005976 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 441772005977 dimer interface [polypeptide binding]; other site 441772005978 active site 441772005979 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772005980 substrate binding site [chemical binding]; other site 441772005981 catalytic residue [active] 441772005982 ATP cone domain; Region: ATP-cone; pfam03477 441772005983 putative oxidoreductase; Provisional; Region: PRK11579 441772005984 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 441772005985 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 441772005986 adenine phosphoribosyltransferase; Provisional; Region: PRK07322 441772005987 active site 441772005988 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772005989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772005990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772005991 metal binding site [ion binding]; metal-binding site 441772005992 active site 441772005993 I-site; other site 441772005994 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 441772005995 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772005996 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 441772005997 Walker A motif; other site 441772005998 ATP binding site [chemical binding]; other site 441772005999 Walker B motif; other site 441772006000 arginine finger; other site 441772006001 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 441772006002 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772006003 ATP binding site [chemical binding]; other site 441772006004 Mg++ binding site [ion binding]; other site 441772006005 motif III; other site 441772006006 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 441772006007 nucleotide binding region [chemical binding]; other site 441772006008 ATP-binding site [chemical binding]; other site 441772006009 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 441772006010 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 441772006011 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 441772006012 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772006013 DNA-binding site [nucleotide binding]; DNA binding site 441772006014 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 441772006015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006016 homodimer interface [polypeptide binding]; other site 441772006017 catalytic residue [active] 441772006018 EamA-like transporter family; Region: EamA; pfam00892 441772006019 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 441772006020 aspartate aminotransferase; Provisional; Region: PRK06348 441772006021 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 441772006022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006023 homodimer interface [polypeptide binding]; other site 441772006024 catalytic residue [active] 441772006025 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 441772006026 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 441772006027 Walker A/P-loop; other site 441772006028 ATP binding site [chemical binding]; other site 441772006029 Q-loop/lid; other site 441772006030 ABC transporter signature motif; other site 441772006031 Walker B; other site 441772006032 D-loop; other site 441772006033 H-loop/switch region; other site 441772006034 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 441772006035 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 441772006036 dimer interface [polypeptide binding]; other site 441772006037 conserved gate region; other site 441772006038 putative PBP binding loops; other site 441772006039 ABC-ATPase subunit interface; other site 441772006040 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 441772006041 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 441772006042 substrate binding pocket [chemical binding]; other site 441772006043 membrane-bound complex binding site; other site 441772006044 hinge residues; other site 441772006045 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 441772006046 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 441772006047 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772006048 catalytic residue [active] 441772006049 Chloramphenicol acetyltransferase; Region: CAT; cl02008 441772006050 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 441772006051 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 441772006052 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 441772006053 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 441772006054 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 441772006055 non-specific DNA binding site [nucleotide binding]; other site 441772006056 salt bridge; other site 441772006057 sequence-specific DNA binding site [nucleotide binding]; other site 441772006058 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 441772006059 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 441772006060 POT family; Region: PTR2; cl17359 441772006061 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 441772006062 POT family; Region: PTR2; cl17359 441772006063 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772006064 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772006065 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 441772006066 active site 441772006067 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 441772006068 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 441772006069 Na2 binding site [ion binding]; other site 441772006070 putative substrate binding site 1 [chemical binding]; other site 441772006071 Na binding site 1 [ion binding]; other site 441772006072 putative substrate binding site 2 [chemical binding]; other site 441772006073 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...; Region: Lipase; cl14883 441772006074 nucleophilic elbow; other site 441772006075 catalytic triad; other site 441772006076 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 441772006077 putative FMN binding site [chemical binding]; other site 441772006078 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 441772006079 metal ion-dependent adhesion site (MIDAS); other site 441772006080 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; cl17189 441772006081 myosin-cross-reactive antigen; Provisional; Region: PRK13977 441772006082 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 441772006083 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772006084 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 441772006085 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 441772006086 active site 441772006087 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 441772006088 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 441772006089 active site 441772006090 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 441772006091 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 441772006092 putative trimer interface [polypeptide binding]; other site 441772006093 putative CoA binding site [chemical binding]; other site 441772006094 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 441772006095 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 441772006096 inhibitor-cofactor binding pocket; inhibition site 441772006097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006098 catalytic residue [active] 441772006099 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 441772006100 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 441772006101 active site 441772006102 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 441772006103 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 441772006104 substrate binding site; other site 441772006105 metal-binding site 441772006106 Oligomer interface; other site 441772006107 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 441772006108 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 441772006109 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 441772006110 NAD binding site [chemical binding]; other site 441772006111 substrate binding site [chemical binding]; other site 441772006112 homodimer interface [polypeptide binding]; other site 441772006113 active site 441772006114 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772006115 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772006116 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 441772006117 PGAP1-like protein; Region: PGAP1; pfam07819 441772006118 VanZ like family; Region: VanZ; pfam04892 441772006119 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 441772006120 glycosyltransferase, MGT family; Region: MGT; TIGR01426 441772006121 active site 441772006122 TDP-binding site; other site 441772006123 acceptor substrate-binding pocket; other site 441772006124 homodimer interface [polypeptide binding]; other site 441772006125 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 441772006126 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 441772006127 cytosine deaminase; Provisional; Region: PRK09230 441772006128 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 441772006129 active site 441772006130 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 441772006131 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 441772006132 Na binding site [ion binding]; other site 441772006133 putative substrate binding site [chemical binding]; other site 441772006134 Radical SAM superfamily; Region: Radical_SAM; pfam04055 441772006135 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 441772006136 FeS/SAM binding site; other site 441772006137 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 441772006138 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 441772006139 cofactor binding site; other site 441772006140 DNA binding site [nucleotide binding] 441772006141 substrate interaction site [chemical binding]; other site 441772006142 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 441772006143 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 441772006144 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 441772006145 AIPR protein; Region: AIPR; pfam10592 441772006146 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 441772006147 Z1 domain; Region: Z1; pfam10593 441772006148 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 441772006149 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 441772006150 ATP binding site [chemical binding]; other site 441772006151 Mg2+ binding site [ion binding]; other site 441772006152 G-X-G motif; other site 441772006153 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 441772006154 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 441772006155 active site 441772006156 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 441772006157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006158 NAD(P) binding site [chemical binding]; other site 441772006159 active site 441772006160 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 441772006161 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 441772006162 active site 441772006163 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 441772006164 active site 441772006165 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 441772006166 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772006167 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 441772006168 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 441772006169 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 441772006170 G1 box; other site 441772006171 putative GEF interaction site [polypeptide binding]; other site 441772006172 GTP/Mg2+ binding site [chemical binding]; other site 441772006173 Switch I region; other site 441772006174 G2 box; other site 441772006175 G3 box; other site 441772006176 Switch II region; other site 441772006177 G4 box; other site 441772006178 G5 box; other site 441772006179 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 441772006180 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 441772006181 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 441772006182 Viral enhancin protein; Region: Enhancin; pfam03272 441772006183 Peptidase M60-like family; Region: M60-like; pfam13402 441772006184 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 441772006185 aromatic chitin/cellulose binding site residues [chemical binding]; other site 441772006186 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 441772006187 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772006188 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772006189 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 441772006190 putative homodimer interface [polypeptide binding]; other site 441772006191 putative homotetramer interface [polypeptide binding]; other site 441772006192 putative metal binding site [ion binding]; other site 441772006193 putative homodimer-homodimer interface [polypeptide binding]; other site 441772006194 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 441772006195 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 441772006196 Hexamer interface [polypeptide binding]; other site 441772006197 Putative hexagonal pore residue; other site 441772006198 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 441772006199 Propanediol utilisation protein PduL; Region: PduL; pfam06130 441772006200 Propanediol utilisation protein PduL; Region: PduL; pfam06130 441772006201 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 441772006202 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772006203 putative catalytic cysteine [active] 441772006204 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 441772006205 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772006206 Hexamer interface [polypeptide binding]; other site 441772006207 Hexagonal pore residue; other site 441772006208 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 441772006209 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 441772006210 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 441772006211 Hexamer/Pentamer interface [polypeptide binding]; other site 441772006212 central pore; other site 441772006213 Bacterial Micro-Compartment (BMC)-like domain 2; Region: BMC_like_2; cd07055 441772006214 putative hexamer interface [polypeptide binding]; other site 441772006215 putative hexagonal pore; other site 441772006216 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 441772006217 Cell division protein FtsA; Region: FtsA; cl17206 441772006218 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 441772006219 nucleotide binding site [chemical binding]; other site 441772006220 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 441772006221 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 441772006222 G1 box; other site 441772006223 GTP/Mg2+ binding site [chemical binding]; other site 441772006224 G2 box; other site 441772006225 Switch I region; other site 441772006226 G3 box; other site 441772006227 Switch II region; other site 441772006228 G4 box; other site 441772006229 G5 box; other site 441772006230 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 441772006231 putative hexamer interface [polypeptide binding]; other site 441772006232 putative hexagonal pore; other site 441772006233 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 441772006234 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772006235 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 441772006236 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 441772006237 dimer interface [polypeptide binding]; other site 441772006238 active site 441772006239 glycine loop; other site 441772006240 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 441772006241 putative catalytic cysteine [active] 441772006242 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 441772006243 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772006244 Hexamer interface [polypeptide binding]; other site 441772006245 Hexagonal pore residue; other site 441772006246 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 441772006247 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 441772006248 Hexamer interface [polypeptide binding]; other site 441772006249 Hexagonal pore residue; other site 441772006250 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 441772006251 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772006252 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772006253 DNA binding residues [nucleotide binding] 441772006254 drug binding residues [chemical binding]; other site 441772006255 dimer interface [polypeptide binding]; other site 441772006256 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 441772006257 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 441772006258 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 441772006259 putative active site [active] 441772006260 metal binding site [ion binding]; metal-binding site 441772006261 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 441772006262 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772006263 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 441772006264 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 441772006265 putative substrate translocation pore; other site 441772006266 Transcriptional regulators [Transcription]; Region: FadR; COG2186 441772006267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772006268 DNA-binding site [nucleotide binding]; DNA binding site 441772006269 FCD domain; Region: FCD; pfam07729 441772006270 MarR family; Region: MarR_2; pfam12802 441772006271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006272 Coenzyme A binding pocket [chemical binding]; other site 441772006273 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 441772006274 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 441772006275 Helix-turn-helix domain; Region: HTH_17; pfam12728 441772006276 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 441772006277 active site 441772006278 catalytic site [active] 441772006279 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 441772006280 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 441772006281 active site 441772006282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772006283 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 441772006284 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 441772006285 ATP binding site [chemical binding]; other site 441772006286 Mg2+ binding site [ion binding]; other site 441772006287 G-X-G motif; other site 441772006288 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772006289 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 441772006290 active site 441772006291 phosphorylation site [posttranslational modification] 441772006292 intermolecular recognition site; other site 441772006293 dimerization interface [polypeptide binding]; other site 441772006294 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 441772006295 DNA binding site [nucleotide binding] 441772006296 TraB family; Region: TraB; cl12050 441772006297 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 441772006298 Zn binding site [ion binding]; other site 441772006299 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772006300 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 441772006301 Walker A/P-loop; other site 441772006302 ATP binding site [chemical binding]; other site 441772006303 Q-loop/lid; other site 441772006304 ABC transporter signature motif; other site 441772006305 Walker B; other site 441772006306 D-loop; other site 441772006307 H-loop/switch region; other site 441772006308 putative oxidoreductase; Provisional; Region: PRK11445 441772006309 TrkA-N domain; Region: TrkA_N; pfam02254 441772006310 Predicted transcriptional regulator [Transcription]; Region: COG3655 441772006311 salt bridge; other site 441772006312 non-specific DNA binding site [nucleotide binding]; other site 441772006313 sequence-specific DNA binding site [nucleotide binding]; other site 441772006314 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 441772006315 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772006316 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 441772006317 NAD(P) binding site [chemical binding]; other site 441772006318 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 441772006319 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 441772006320 Metal-binding active site; metal-binding site 441772006321 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics; Region: DOIS; cd08197 441772006322 active site 441772006323 dimer interface [polypeptide binding]; other site 441772006324 metal binding site [ion binding]; metal-binding site 441772006325 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772006326 FtsX-like permease family; Region: FtsX; pfam02687 441772006327 FtsX-like permease family; Region: FtsX; pfam02687 441772006328 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772006329 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772006330 Walker A/P-loop; other site 441772006331 ATP binding site [chemical binding]; other site 441772006332 Q-loop/lid; other site 441772006333 ABC transporter signature motif; other site 441772006334 Walker B; other site 441772006335 D-loop; other site 441772006336 H-loop/switch region; other site 441772006337 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 441772006338 HTH domain; Region: HTH_11; pfam08279 441772006339 HTH domain; Region: HTH_11; pfam08279 441772006340 PRD domain; Region: PRD; pfam00874 441772006341 PRD domain; Region: PRD; pfam00874 441772006342 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 441772006343 active site 441772006344 P-loop; other site 441772006345 phosphorylation site [posttranslational modification] 441772006346 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 441772006347 active site 441772006348 phosphorylation site [posttranslational modification] 441772006349 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 441772006350 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 441772006351 active site 441772006352 P-loop; other site 441772006353 phosphorylation site [posttranslational modification] 441772006354 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 441772006355 active site 441772006356 phosphorylation site [posttranslational modification] 441772006357 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772006358 active site 441772006359 intersubunit interactions; other site 441772006360 catalytic residue [active] 441772006361 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 441772006362 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 441772006363 active site 441772006364 substrate binding site [chemical binding]; other site 441772006365 trimer interface [polypeptide binding]; other site 441772006366 CoA binding site [chemical binding]; other site 441772006367 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 441772006368 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 441772006369 POT family; Region: PTR2; cl17359 441772006370 Methyltransferase domain; Region: Methyltransf_23; pfam13489 441772006371 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 441772006372 S-adenosylmethionine binding site [chemical binding]; other site 441772006373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006374 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772006375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006376 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 441772006377 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; cl17186 441772006378 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 441772006379 phosphate binding site [ion binding]; other site 441772006380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772006381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 441772006382 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772006383 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 441772006384 DNA binding residues [nucleotide binding] 441772006385 dimer interface [polypeptide binding]; other site 441772006386 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 441772006387 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 441772006388 CRISPR system related protein, RAMP superfamily [Defense mechanisms]; Region: COG1336 441772006389 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 441772006390 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09748 441772006391 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 441772006392 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 441772006393 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 441772006394 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 441772006395 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 441772006396 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 441772006397 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 441772006398 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 441772006399 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772006400 DNA-binding site [nucleotide binding]; DNA binding site 441772006401 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 441772006402 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 441772006403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006404 homodimer interface [polypeptide binding]; other site 441772006405 catalytic residue [active] 441772006406 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 441772006407 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 441772006408 active site 441772006409 Staygreen protein; Region: Staygreen; pfam12638 441772006410 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 441772006411 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 441772006412 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 441772006413 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 441772006414 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 441772006415 Catalytic domain of Protein Kinases; Region: PKc; cd00180 441772006416 active site 441772006417 ATP binding site [chemical binding]; other site 441772006418 substrate binding site [chemical binding]; other site 441772006419 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 441772006420 substrate binding site [chemical binding]; other site 441772006421 activation loop (A-loop); other site 441772006422 activation loop (A-loop); other site 441772006423 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772006424 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772006425 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 441772006426 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772006427 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772006428 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 441772006429 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772006430 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 441772006431 Ligand binding site [chemical binding]; other site 441772006432 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772006433 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772006434 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 441772006435 active site 441772006436 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 441772006437 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006438 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 441772006439 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006440 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 441772006441 CoA-transferase family III; Region: CoA_transf_3; pfam02515 441772006442 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772006443 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 441772006444 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006445 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 441772006446 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006447 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772006448 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772006449 nucleotide binding site [chemical binding]; other site 441772006450 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772006451 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772006452 dimer interface [polypeptide binding]; other site 441772006453 putative CheW interface [polypeptide binding]; other site 441772006454 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 441772006455 dimer interface [polypeptide binding]; other site 441772006456 FMN binding site [chemical binding]; other site 441772006457 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 441772006458 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 441772006459 active site 441772006460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006461 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772006462 Coenzyme A binding pocket [chemical binding]; other site 441772006463 FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1; Region: FosX; cd08364 441772006464 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 441772006465 dimer interface [polypeptide binding]; other site 441772006466 active site 441772006467 Mn binding site [ion binding]; other site 441772006468 GntP family permease; Region: GntP_permease; pfam02447 441772006469 fructuronate transporter; Provisional; Region: PRK10034; cl15264 441772006470 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 441772006471 Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]; Region: PdxA; COG1995 441772006472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 441772006473 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 441772006474 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 441772006475 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 441772006476 CAAX protease self-immunity; Region: Abi; pfam02517 441772006477 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772006478 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 441772006479 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 441772006480 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 441772006481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772006482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772006483 WHG domain; Region: WHG; pfam13305 441772006484 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772006485 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 441772006486 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772006487 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 441772006488 putative NAD(P) binding site [chemical binding]; other site 441772006489 catalytic Zn binding site [ion binding]; other site 441772006490 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 441772006491 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 441772006492 ACS interaction site; other site 441772006493 CODH interaction site; other site 441772006494 cubane metal cluster (B-cluster) [ion binding]; other site 441772006495 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 441772006496 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 441772006497 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 441772006498 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 441772006499 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772006500 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772006501 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772006502 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 441772006503 P loop nucleotide binding; other site 441772006504 Ferredoxin [Energy production and conversion]; Region: COG1146 441772006505 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 441772006506 switch II; other site 441772006507 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 441772006508 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 441772006509 P loop nucleotide binding; other site 441772006510 switch II; other site 441772006511 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 441772006512 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 441772006513 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 441772006514 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 441772006515 ligand binding site [chemical binding]; other site 441772006516 flagellar motor protein MotA; Validated; Region: PRK08124 441772006517 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 441772006518 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006519 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 441772006520 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006521 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 441772006522 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 441772006523 OPT oligopeptide transporter protein; Region: OPT; cl14607 441772006524 putative oligopeptide transporter, OPT family; Region: TIGR00733 441772006525 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772006526 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772006527 metal binding site [ion binding]; metal-binding site 441772006528 dimer interface [polypeptide binding]; other site 441772006529 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 441772006530 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 441772006531 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772006532 catalytic residue [active] 441772006533 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 441772006534 oxidoreductase; Provisional; Region: PRK08017 441772006535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772006536 NAD(P) binding site [chemical binding]; other site 441772006537 active site 441772006538 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 441772006539 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772006540 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 441772006541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772006542 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772006543 Walker A/P-loop; other site 441772006544 ATP binding site [chemical binding]; other site 441772006545 Q-loop/lid; other site 441772006546 ABC transporter signature motif; other site 441772006547 Walker B; other site 441772006548 D-loop; other site 441772006549 H-loop/switch region; other site 441772006550 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772006551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006552 Coenzyme A binding pocket [chemical binding]; other site 441772006553 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006554 MarR family; Region: MarR_2; pfam12802 441772006555 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 441772006556 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 441772006557 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 441772006558 Predicted dehydrogenase [General function prediction only]; Region: COG0579 441772006559 hydroxyglutarate oxidase; Provisional; Region: PRK11728 441772006560 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 441772006561 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 441772006562 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 441772006563 DNA binding residues [nucleotide binding] 441772006564 drug binding residues [chemical binding]; other site 441772006565 dimer interface [polypeptide binding]; other site 441772006566 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 441772006567 Amino acid permease; Region: AA_permease_2; pfam13520 441772006568 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 441772006569 putative ADP-ribose binding site [chemical binding]; other site 441772006570 putative active site [active] 441772006571 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 441772006572 MarR family; Region: MarR_2; cl17246 441772006573 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006574 TIGR03987 family protein; Region: TIGR03987 441772006575 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 441772006576 substrate binding site [chemical binding]; other site 441772006577 multimerization interface [polypeptide binding]; other site 441772006578 ATP binding site [chemical binding]; other site 441772006579 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 441772006580 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 441772006581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772006582 Coenzyme A binding pocket [chemical binding]; other site 441772006583 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772006584 Mor transcription activator family; Region: Mor; cl02360 441772006585 AAA domain; Region: AAA_26; pfam13500 441772006586 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 441772006587 biotin synthase; Region: bioB; TIGR00433 441772006588 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 441772006589 FeS/SAM binding site; other site 441772006590 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 441772006591 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 441772006592 hypothetical protein; Provisional; Region: PRK09272 441772006593 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772006594 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 441772006595 putative DNA binding site [nucleotide binding]; other site 441772006596 putative Zn2+ binding site [ion binding]; other site 441772006597 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 441772006598 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772006599 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 441772006600 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 441772006601 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 441772006602 active site 441772006603 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 441772006604 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 441772006605 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 441772006606 YmaF family; Region: YmaF; pfam12788 441772006607 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 441772006608 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 441772006609 active site 441772006610 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772006611 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772006612 YmaF family; Region: YmaF; pfam12788 441772006613 hypothetical protein; Provisional; Region: PRK05802 441772006614 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 441772006615 FAD binding pocket [chemical binding]; other site 441772006616 FAD binding motif [chemical binding]; other site 441772006617 phosphate binding motif [ion binding]; other site 441772006618 beta-alpha-beta structure motif; other site 441772006619 NAD binding pocket [chemical binding]; other site 441772006620 Iron coordination center [ion binding]; other site 441772006621 methionine sulfoxide reductase B; Provisional; Region: PRK00222 441772006622 SelR domain; Region: SelR; pfam01641 441772006623 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 441772006624 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 441772006625 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 441772006626 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772006627 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772006628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772006629 Walker A/P-loop; other site 441772006630 ATP binding site [chemical binding]; other site 441772006631 Q-loop/lid; other site 441772006632 ABC transporter signature motif; other site 441772006633 Walker B; other site 441772006634 D-loop; other site 441772006635 H-loop/switch region; other site 441772006636 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772006637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772006638 serine racemase; Region: PLN02970 441772006639 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772006640 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772006641 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772006642 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 441772006643 Walker A/P-loop; other site 441772006644 ATP binding site [chemical binding]; other site 441772006645 Q-loop/lid; other site 441772006646 ABC transporter signature motif; other site 441772006647 Walker B; other site 441772006648 D-loop; other site 441772006649 H-loop/switch region; other site 441772006650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772006651 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 441772006652 dimer interface [polypeptide binding]; other site 441772006653 phosphorylation site [posttranslational modification] 441772006654 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 441772006655 ATP binding site [chemical binding]; other site 441772006656 Mg2+ binding site [ion binding]; other site 441772006657 G-X-G motif; other site 441772006658 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772006659 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 441772006660 active site 441772006661 phosphorylation site [posttranslational modification] 441772006662 intermolecular recognition site; other site 441772006663 dimerization interface [polypeptide binding]; other site 441772006664 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 441772006665 DNA binding site [nucleotide binding] 441772006666 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 441772006667 active site 441772006668 catalytic site [active] 441772006669 substrate binding site [chemical binding]; other site 441772006670 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 441772006671 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 441772006672 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 441772006673 active site 441772006674 catalytic residues [active] 441772006675 metal binding site [ion binding]; metal-binding site 441772006676 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 441772006677 non-specific DNA binding site [nucleotide binding]; other site 441772006678 salt bridge; other site 441772006679 sequence-specific DNA binding site [nucleotide binding]; other site 441772006680 transglutaminase; Provisional; Region: tgl; PRK03187 441772006681 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772006682 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772006683 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 441772006684 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 441772006685 tetrameric interface [polypeptide binding]; other site 441772006686 activator binding site; other site 441772006687 NADP binding site [chemical binding]; other site 441772006688 substrate binding site [chemical binding]; other site 441772006689 catalytic residues [active] 441772006690 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 441772006691 FAD binding pocket [chemical binding]; other site 441772006692 FAD binding motif [chemical binding]; other site 441772006693 phosphate binding motif [ion binding]; other site 441772006694 beta-alpha-beta structure motif; other site 441772006695 NAD binding pocket [chemical binding]; other site 441772006696 Heme binding pocket [chemical binding]; other site 441772006697 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 441772006698 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 441772006699 active site 441772006700 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 441772006701 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772006702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772006703 Spore germination protein; Region: Spore_permease; pfam03845 441772006704 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 441772006705 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 441772006706 active site 441772006707 NTP binding site [chemical binding]; other site 441772006708 metal binding triad [ion binding]; metal-binding site 441772006709 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 441772006710 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772006711 Zn2+ binding site [ion binding]; other site 441772006712 Mg2+ binding site [ion binding]; other site 441772006713 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 441772006714 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 441772006715 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772006716 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772006717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772006718 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 441772006719 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 441772006720 dimer interface [polypeptide binding]; other site 441772006721 phosphorylation site [posttranslational modification] 441772006722 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 441772006723 ATP binding site [chemical binding]; other site 441772006724 Mg2+ binding site [ion binding]; other site 441772006725 G-X-G motif; other site 441772006726 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772006727 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 441772006728 active site 441772006729 phosphorylation site [posttranslational modification] 441772006730 intermolecular recognition site; other site 441772006731 dimerization interface [polypeptide binding]; other site 441772006732 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 441772006733 DNA binding site [nucleotide binding] 441772006734 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 441772006735 Transcription factor homologous to NACalpha-BTF3 [Transcription]; Region: EGD2; COG1308 441772006736 hypothetical protein; Provisional; Region: PRK06921 441772006737 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 441772006738 Walker A motif; other site 441772006739 ATP binding site [chemical binding]; other site 441772006740 Walker B motif; other site 441772006741 arginine finger; other site 441772006742 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772006743 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 441772006744 non-specific DNA binding site [nucleotide binding]; other site 441772006745 salt bridge; other site 441772006746 sequence-specific DNA binding site [nucleotide binding]; other site 441772006747 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 441772006748 non-specific DNA binding site [nucleotide binding]; other site 441772006749 salt bridge; other site 441772006750 sequence-specific DNA binding site [nucleotide binding]; other site 441772006751 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 441772006752 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 441772006753 NlpC/P60 family; Region: NLPC_P60; pfam00877 441772006754 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772006755 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 441772006756 non-specific DNA binding site [nucleotide binding]; other site 441772006757 salt bridge; other site 441772006758 sequence-specific DNA binding site [nucleotide binding]; other site 441772006759 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772006760 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 441772006761 catalytic residues [active] 441772006762 catalytic nucleophile [active] 441772006763 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772006764 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 441772006765 active site 441772006766 metal binding site [ion binding]; metal-binding site 441772006767 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772006768 Haemolysin XhlA; Region: XhlA; pfam10779 441772006769 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 441772006770 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 441772006771 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 441772006772 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 441772006773 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 441772006774 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 441772006775 Short C-terminal domain; Region: SHOCT; pfam09851 441772006776 Phage XkdN-like protein; Region: XkdN; pfam08890 441772006777 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 441772006778 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 441772006779 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 441772006780 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 441772006781 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 441772006782 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 441772006783 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 441772006784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 441772006785 Terminase-like family; Region: Terminase_6; pfam03237 441772006786 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 441772006787 Terminase small subunit; Region: Terminase_2; pfam03592 441772006788 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 441772006789 homodimer interface [polypeptide binding]; other site 441772006790 metal binding site [ion binding]; metal-binding site 441772006791 DEAD-like helicases superfamily; Region: DEXDc; smart00487 441772006792 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 441772006793 ATP binding site [chemical binding]; other site 441772006794 putative Mg++ binding site [ion binding]; other site 441772006795 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 441772006796 nucleotide binding region [chemical binding]; other site 441772006797 ATP-binding site [chemical binding]; other site 441772006798 VRR-NUC domain; Region: VRR_NUC; pfam08774 441772006799 Virulence-associated protein E; Region: VirE; pfam05272 441772006800 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 441772006801 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 441772006802 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 441772006803 cofactor binding site; other site 441772006804 DNA binding site [nucleotide binding] 441772006805 substrate interaction site [chemical binding]; other site 441772006806 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 441772006807 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 441772006808 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 441772006809 active site 441772006810 DNA binding site [nucleotide binding] 441772006811 catalytic site [active] 441772006812 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 441772006813 Domain of unknown function (DUF3797); Region: DUF3797; pfam12677 441772006814 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 441772006815 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 441772006816 replication factor C large subunit; Provisional; Region: PRK04195 441772006817 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 441772006818 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 441772006819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772006820 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 441772006821 DNA binding residues [nucleotide binding] 441772006822 ORF6N domain; Region: ORF6N; pfam10543 441772006823 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 441772006824 non-specific DNA binding site [nucleotide binding]; other site 441772006825 salt bridge; other site 441772006826 sequence-specific DNA binding site [nucleotide binding]; other site 441772006827 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772006828 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 441772006829 non-specific DNA binding site [nucleotide binding]; other site 441772006830 salt bridge; other site 441772006831 sequence-specific DNA binding site [nucleotide binding]; other site 441772006832 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772006833 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 441772006834 catalytic residues [active] 441772006835 catalytic nucleophile [active] 441772006836 Presynaptic Site I dimer interface [polypeptide binding]; other site 441772006837 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 441772006838 Synaptic Flat tetramer interface [polypeptide binding]; other site 441772006839 Synaptic Site I dimer interface [polypeptide binding]; other site 441772006840 DNA binding site [nucleotide binding] 441772006841 Recombinase; Region: Recombinase; pfam07508 441772006842 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 441772006843 Glucose inhibited division protein A; Region: GIDA; pfam01134 441772006844 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 441772006845 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 441772006846 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 441772006847 tetramer interface [polypeptide binding]; other site 441772006848 active site 441772006849 Uncharacterized conserved protein [Function unknown]; Region: COG2155 441772006850 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 441772006851 dimerization domain swap beta strand [polypeptide binding]; other site 441772006852 regulatory protein interface [polypeptide binding]; other site 441772006853 active site 441772006854 regulatory phosphorylation site [posttranslational modification]; other site 441772006855 aspartate aminotransferase; Provisional; Region: PRK05764 441772006856 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 441772006857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772006858 homodimer interface [polypeptide binding]; other site 441772006859 catalytic residue [active] 441772006860 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 441772006861 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 441772006862 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 441772006863 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 441772006864 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 441772006865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772006866 Zn2+ binding site [ion binding]; other site 441772006867 Mg2+ binding site [ion binding]; other site 441772006868 recombinase A; Provisional; Region: recA; PRK09354 441772006869 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 441772006870 hexamer interface [polypeptide binding]; other site 441772006871 Walker A motif; other site 441772006872 ATP binding site [chemical binding]; other site 441772006873 Walker B motif; other site 441772006874 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 441772006875 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 441772006876 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772006877 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 441772006878 Tetraspanin family; Region: Tetraspannin; pfam00335 441772006879 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 441772006880 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 441772006881 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 441772006882 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 441772006883 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 441772006884 active site 441772006885 aspartate kinase I; Reviewed; Region: PRK08210 441772006886 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 441772006887 nucleotide binding site [chemical binding]; other site 441772006888 substrate binding site [chemical binding]; other site 441772006889 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 441772006890 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 441772006891 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 441772006892 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 441772006893 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772006894 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772006895 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 441772006896 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 441772006897 RNase E interface [polypeptide binding]; other site 441772006898 trimer interface [polypeptide binding]; other site 441772006899 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 441772006900 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 441772006901 RNase E interface [polypeptide binding]; other site 441772006902 trimer interface [polypeptide binding]; other site 441772006903 active site 441772006904 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 441772006905 putative nucleic acid binding region [nucleotide binding]; other site 441772006906 G-X-X-G motif; other site 441772006907 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 441772006908 RNA binding site [nucleotide binding]; other site 441772006909 domain interface; other site 441772006910 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 441772006911 16S/18S rRNA binding site [nucleotide binding]; other site 441772006912 S13e-L30e interaction site [polypeptide binding]; other site 441772006913 25S rRNA binding site [nucleotide binding]; other site 441772006914 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 441772006915 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 441772006916 active site 441772006917 Riboflavin kinase; Region: Flavokinase; pfam01687 441772006918 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 441772006919 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 441772006920 RNA binding site [nucleotide binding]; other site 441772006921 active site 441772006922 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 441772006923 DHH family; Region: DHH; pfam01368 441772006924 DHHA1 domain; Region: DHHA1; pfam02272 441772006925 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 441772006926 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 441772006927 translation initiation factor IF-2; Region: IF-2; TIGR00487 441772006928 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 441772006929 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 441772006930 G1 box; other site 441772006931 putative GEF interaction site [polypeptide binding]; other site 441772006932 GTP/Mg2+ binding site [chemical binding]; other site 441772006933 Switch I region; other site 441772006934 G2 box; other site 441772006935 G3 box; other site 441772006936 Switch II region; other site 441772006937 G4 box; other site 441772006938 G5 box; other site 441772006939 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 441772006940 Translation-initiation factor 2; Region: IF-2; pfam11987 441772006941 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 441772006942 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 441772006943 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 441772006944 putative RNA binding cleft [nucleotide binding]; other site 441772006945 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 441772006946 NusA N-terminal domain; Region: NusA_N; pfam08529 441772006947 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 441772006948 RNA binding site [nucleotide binding]; other site 441772006949 homodimer interface [polypeptide binding]; other site 441772006950 NusA-like KH domain; Region: KH_5; pfam13184 441772006951 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 441772006952 G-X-X-G motif; other site 441772006953 Sm and related proteins; Region: Sm_like; cl00259 441772006954 ribosome maturation protein RimP; Reviewed; Region: PRK00092 441772006955 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 441772006956 putative oligomer interface [polypeptide binding]; other site 441772006957 putative RNA binding site [nucleotide binding]; other site 441772006958 DNA polymerase III PolC; Validated; Region: polC; PRK00448 441772006959 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 441772006960 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 441772006961 generic binding surface II; other site 441772006962 generic binding surface I; other site 441772006963 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 441772006964 active site 441772006965 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 441772006966 active site 441772006967 catalytic site [active] 441772006968 substrate binding site [chemical binding]; other site 441772006969 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 441772006970 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 441772006971 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 441772006972 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 441772006973 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 441772006974 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 441772006975 active site 441772006976 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 441772006977 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 441772006978 putative substrate binding region [chemical binding]; other site 441772006979 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 441772006980 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 441772006981 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 441772006982 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 441772006983 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 441772006984 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 441772006985 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 441772006986 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 441772006987 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 441772006988 catalytic residue [active] 441772006989 putative FPP diphosphate binding site; other site 441772006990 putative FPP binding hydrophobic cleft; other site 441772006991 dimer interface [polypeptide binding]; other site 441772006992 putative IPP diphosphate binding site; other site 441772006993 ribosome recycling factor; Reviewed; Region: frr; PRK00083 441772006994 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...; Region: RRF; cd00520 441772006995 hinge region; other site 441772006996 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 441772006997 putative nucleotide binding site [chemical binding]; other site 441772006998 uridine monophosphate binding site [chemical binding]; other site 441772006999 homohexameric interface [polypeptide binding]; other site 441772007000 elongation factor Ts; Provisional; Region: tsf; PRK09377 441772007001 UBA/TS-N domain; Region: UBA; pfam00627 441772007002 Elongation factor TS; Region: EF_TS; pfam00889 441772007003 Elongation factor TS; Region: EF_TS; pfam00889 441772007004 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 441772007005 rRNA interaction site [nucleotide binding]; other site 441772007006 S8 interaction site; other site 441772007007 putative laminin-1 binding site; other site 441772007008 transcriptional repressor CodY; Validated; Region: PRK04158 441772007009 CodY GAF-like domain; Region: CodY; pfam06018 441772007010 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 441772007011 DNA topoisomerase I; Validated; Region: PRK05582 441772007012 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 441772007013 active site 441772007014 interdomain interaction site; other site 441772007015 putative metal-binding site [ion binding]; other site 441772007016 nucleotide binding site [chemical binding]; other site 441772007017 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 441772007018 domain I; other site 441772007019 DNA binding groove [nucleotide binding] 441772007020 phosphate binding site [ion binding]; other site 441772007021 domain II; other site 441772007022 domain III; other site 441772007023 nucleotide binding site [chemical binding]; other site 441772007024 catalytic site [active] 441772007025 domain IV; other site 441772007026 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772007027 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772007028 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 441772007029 DNA protecting protein DprA; Region: dprA; TIGR00732 441772007030 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 441772007031 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 441772007032 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 441772007033 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 441772007034 Walker A motif; other site 441772007035 ATP binding site [chemical binding]; other site 441772007036 Walker B motif; other site 441772007037 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 441772007038 hypothetical protein; Reviewed; Region: PRK12497 441772007039 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 441772007040 RNA/DNA hybrid binding site [nucleotide binding]; other site 441772007041 active site 441772007042 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 441772007043 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 441772007044 GTP/Mg2+ binding site [chemical binding]; other site 441772007045 G4 box; other site 441772007046 G5 box; other site 441772007047 G1 box; other site 441772007048 Switch I region; other site 441772007049 G2 box; other site 441772007050 G3 box; other site 441772007051 Switch II region; other site 441772007052 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 441772007053 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 441772007054 Catalytic site [active] 441772007055 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 441772007056 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 441772007057 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 441772007058 RimM N-terminal domain; Region: RimM; pfam01782 441772007059 PRC-barrel domain; Region: PRC; pfam05239 441772007060 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 441772007061 hypothetical protein; Provisional; Region: PRK00468 441772007062 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 441772007063 signal recognition particle protein; Provisional; Region: PRK10867 441772007064 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 441772007065 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 441772007066 P loop; other site 441772007067 GTP binding site [chemical binding]; other site 441772007068 Signal peptide binding domain; Region: SRP_SPB; pfam02978 441772007069 putative DNA-binding protein; Validated; Region: PRK00118 441772007070 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 441772007071 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 441772007072 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 441772007073 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772007074 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 441772007075 AAA domain; Region: AAA_23; pfam13476 441772007076 Walker A/P-loop; other site 441772007077 ATP binding site [chemical binding]; other site 441772007078 Q-loop/lid; other site 441772007079 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 441772007080 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 441772007081 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 441772007082 Q-loop/lid; other site 441772007083 ABC transporter signature motif; other site 441772007084 Walker B; other site 441772007085 D-loop; other site 441772007086 H-loop/switch region; other site 441772007087 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 441772007088 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 441772007089 FeS/SAM binding site; other site 441772007090 ribonuclease III; Reviewed; Region: rnc; PRK00102 441772007091 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 441772007092 dimerization interface [polypeptide binding]; other site 441772007093 active site 441772007094 metal binding site [ion binding]; metal-binding site 441772007095 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 441772007096 dsRNA binding site [nucleotide binding]; other site 441772007097 acyl carrier protein; Provisional; Region: acpP; PRK00982 441772007098 putative phosphate acyltransferase; Provisional; Region: PRK05331 441772007099 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 441772007100 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 441772007101 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 441772007102 propionate/acetate kinase; Provisional; Region: PRK12379 441772007103 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 441772007104 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772007105 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 441772007106 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772007107 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772007108 Cache domain; Region: Cache_1; pfam02743 441772007109 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 441772007110 dimerization interface [polypeptide binding]; other site 441772007111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772007112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007113 dimer interface [polypeptide binding]; other site 441772007114 putative CheW interface [polypeptide binding]; other site 441772007115 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772007116 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 441772007117 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772007118 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 441772007119 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772007120 proline racemase; Provisional; Region: PRK13969 441772007121 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 441772007122 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772007123 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 441772007124 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772007125 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 441772007126 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772007127 SLBB domain; Region: SLBB; pfam10531 441772007128 Predicted permease; Region: DUF318; cl17795 441772007129 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772007130 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 441772007131 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772007132 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 441772007133 putative active site [active] 441772007134 heme pocket [chemical binding]; other site 441772007135 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 441772007136 Walker A motif; other site 441772007137 ATP binding site [chemical binding]; other site 441772007138 Walker B motif; other site 441772007139 arginine finger; other site 441772007140 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772007141 hypothetical protein; Provisional; Region: PRK13670 441772007142 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 441772007143 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 441772007144 Nucleoside recognition; Region: Gate; pfam07670 441772007145 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 441772007146 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 441772007147 active site 441772007148 (T/H)XGH motif; other site 441772007149 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 441772007150 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 441772007151 S-adenosylmethionine binding site [chemical binding]; other site 441772007152 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 441772007153 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 441772007154 ssDNA binding site; other site 441772007155 generic binding surface II; other site 441772007156 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 441772007157 ATP binding site [chemical binding]; other site 441772007158 putative Mg++ binding site [ion binding]; other site 441772007159 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 441772007160 nucleotide binding region [chemical binding]; other site 441772007161 ATP-binding site [chemical binding]; other site 441772007162 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 441772007163 DAK2 domain; Region: Dak2; pfam02734 441772007164 Asp23 family; Region: Asp23; pfam03780 441772007165 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 441772007166 Thiamine pyrophosphokinase; Region: TPK; cd07995 441772007167 active site 441772007168 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 441772007169 dimerization interface [polypeptide binding]; other site 441772007170 thiamine binding site [chemical binding]; other site 441772007171 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 441772007172 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 441772007173 substrate binding site [chemical binding]; other site 441772007174 hexamer interface [polypeptide binding]; other site 441772007175 metal binding site [ion binding]; metal-binding site 441772007176 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 441772007177 GTPase RsgA; Reviewed; Region: PRK00098 441772007178 RNA binding site [nucleotide binding]; other site 441772007179 homodimer interface [polypeptide binding]; other site 441772007180 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 441772007181 GTPase/Zn-binding domain interface [polypeptide binding]; other site 441772007182 GTP/Mg2+ binding site [chemical binding]; other site 441772007183 G4 box; other site 441772007184 G5 box; other site 441772007185 G1 box; other site 441772007186 Switch I region; other site 441772007187 G2 box; other site 441772007188 G3 box; other site 441772007189 Switch II region; other site 441772007190 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 441772007191 Catalytic domain of Protein Kinases; Region: PKc; cd00180 441772007192 active site 441772007193 ATP binding site [chemical binding]; other site 441772007194 substrate binding site [chemical binding]; other site 441772007195 activation loop (A-loop); other site 441772007196 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 441772007197 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 441772007198 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 441772007199 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 441772007200 active site 441772007201 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 441772007202 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 441772007203 FeS/SAM binding site; other site 441772007204 16S rRNA methyltransferase B; Provisional; Region: PRK14902 441772007205 NusB family; Region: NusB; pfam01029 441772007206 putative RNA binding site [nucleotide binding]; other site 441772007207 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 441772007208 S-adenosylmethionine binding site [chemical binding]; other site 441772007209 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 441772007210 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 441772007211 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 441772007212 putative active site [active] 441772007213 substrate binding site [chemical binding]; other site 441772007214 putative cosubstrate binding site; other site 441772007215 catalytic site [active] 441772007216 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 441772007217 substrate binding site [chemical binding]; other site 441772007218 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 441772007219 active site 441772007220 catalytic residues [active] 441772007221 metal binding site [ion binding]; metal-binding site 441772007222 primosome assembly protein PriA; Validated; Region: PRK05580 441772007223 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 441772007224 ATP binding site [chemical binding]; other site 441772007225 putative Mg++ binding site [ion binding]; other site 441772007226 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 441772007227 nucleotide binding region [chemical binding]; other site 441772007228 ATP-binding site [chemical binding]; other site 441772007229 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 441772007230 Flavoprotein; Region: Flavoprotein; pfam02441 441772007231 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 441772007232 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 441772007233 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 441772007234 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 441772007235 catalytic site [active] 441772007236 G-X2-G-X-G-K; other site 441772007237 hypothetical protein; Provisional; Region: PRK04323 441772007238 hypothetical protein; Provisional; Region: PRK11820 441772007239 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 441772007240 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 441772007241 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 441772007242 active site 441772007243 homotetramer interface [polypeptide binding]; other site 441772007244 homodimer interface [polypeptide binding]; other site 441772007245 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 441772007246 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 441772007247 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 441772007248 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 441772007249 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 441772007250 GTP-binding protein Der; Reviewed; Region: PRK00093 441772007251 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 441772007252 G1 box; other site 441772007253 GTP/Mg2+ binding site [chemical binding]; other site 441772007254 Switch I region; other site 441772007255 G2 box; other site 441772007256 Switch II region; other site 441772007257 G3 box; other site 441772007258 G4 box; other site 441772007259 G5 box; other site 441772007260 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 441772007261 G1 box; other site 441772007262 GTP/Mg2+ binding site [chemical binding]; other site 441772007263 Switch I region; other site 441772007264 G2 box; other site 441772007265 G3 box; other site 441772007266 Switch II region; other site 441772007267 G4 box; other site 441772007268 G5 box; other site 441772007269 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 441772007270 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 441772007271 Protein of unknown function (DUF512); Region: DUF512; pfam04459 441772007272 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 441772007273 PhoU domain; Region: PhoU; pfam01895 441772007274 PhoU domain; Region: PhoU; pfam01895 441772007275 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 441772007276 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 441772007277 Walker A/P-loop; other site 441772007278 ATP binding site [chemical binding]; other site 441772007279 Q-loop/lid; other site 441772007280 ABC transporter signature motif; other site 441772007281 Walker B; other site 441772007282 D-loop; other site 441772007283 H-loop/switch region; other site 441772007284 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 441772007285 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 441772007286 dimer interface [polypeptide binding]; other site 441772007287 conserved gate region; other site 441772007288 putative PBP binding loops; other site 441772007289 ABC-ATPase subunit interface; other site 441772007290 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 441772007291 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 441772007292 dimer interface [polypeptide binding]; other site 441772007293 conserved gate region; other site 441772007294 putative PBP binding loops; other site 441772007295 ABC-ATPase subunit interface; other site 441772007296 PBP superfamily domain; Region: PBP_like_2; cl17296 441772007297 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 441772007298 dimerization interface [polypeptide binding]; other site 441772007299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 441772007300 PAS domain; Region: PAS; smart00091 441772007301 putative active site [active] 441772007302 heme pocket [chemical binding]; other site 441772007303 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 441772007304 dimer interface [polypeptide binding]; other site 441772007305 phosphorylation site [posttranslational modification] 441772007306 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 441772007307 ATP binding site [chemical binding]; other site 441772007308 Mg2+ binding site [ion binding]; other site 441772007309 G-X-G motif; other site 441772007310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772007311 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 441772007312 active site 441772007313 phosphorylation site [posttranslational modification] 441772007314 intermolecular recognition site; other site 441772007315 dimerization interface [polypeptide binding]; other site 441772007316 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 441772007317 DNA binding site [nucleotide binding] 441772007318 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 441772007319 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 441772007320 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 441772007321 ATP cone domain; Region: ATP-cone; pfam03477 441772007322 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 441772007323 sporulation sigma factor SigG; Reviewed; Region: PRK08215 441772007324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007325 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772007326 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 441772007327 DNA binding residues [nucleotide binding] 441772007328 sporulation sigma factor SigE; Reviewed; Region: PRK08301 441772007329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007330 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 441772007331 DNA binding residues [nucleotide binding] 441772007332 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 441772007333 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 441772007334 cell division protein FtsZ; Validated; Region: PRK09330 441772007335 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 441772007336 nucleotide binding site [chemical binding]; other site 441772007337 SulA interaction site; other site 441772007338 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 441772007339 Cell division protein FtsA; Region: FtsA; smart00842 441772007340 Cell division protein FtsA; Region: FtsA; pfam14450 441772007341 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 441772007342 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 441772007343 DXD motif; other site 441772007344 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 441772007345 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 441772007346 Walker A motif; other site 441772007347 ATP binding site [chemical binding]; other site 441772007348 Walker B motif; other site 441772007349 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 441772007350 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 441772007351 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 441772007352 shikimate binding site; other site 441772007353 NAD(P) binding site [chemical binding]; other site 441772007354 sporulation sigma factor SigK; Reviewed; Region: PRK05803 441772007355 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007356 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 441772007357 DNA binding residues [nucleotide binding] 441772007358 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 441772007359 conserved domain; Region: TIGR02271 441772007360 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 441772007361 RecT family; Region: RecT; pfam03837 441772007362 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 441772007363 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 441772007364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 441772007365 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 441772007366 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 441772007367 Sugar specificity; other site 441772007368 Pyrimidine base specificity; other site 441772007369 ATP-binding site [chemical binding]; other site 441772007370 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 441772007371 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 441772007372 Peptidase family U32; Region: Peptidase_U32; pfam01136 441772007373 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 441772007374 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 441772007375 S-adenosylmethionine binding site [chemical binding]; other site 441772007376 YceG-like family; Region: YceG; pfam02618 441772007377 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 441772007378 dimerization interface [polypeptide binding]; other site 441772007379 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 441772007380 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 441772007381 G1 box; other site 441772007382 putative GEF interaction site [polypeptide binding]; other site 441772007383 GTP/Mg2+ binding site [chemical binding]; other site 441772007384 Switch I region; other site 441772007385 G2 box; other site 441772007386 G3 box; other site 441772007387 Switch II region; other site 441772007388 G4 box; other site 441772007389 G5 box; other site 441772007390 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 441772007391 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 441772007392 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 441772007393 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772007394 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 441772007395 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772007396 metal binding site 2 [ion binding]; metal-binding site 441772007397 putative DNA binding helix; other site 441772007398 metal binding site 1 [ion binding]; metal-binding site 441772007399 dimer interface [polypeptide binding]; other site 441772007400 structural Zn2+ binding site [ion binding]; other site 441772007401 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 441772007402 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 441772007403 hypothetical protein; Provisional; Region: PRK05473 441772007404 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 441772007405 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...; Region: AlaRS_core; cd00673 441772007406 motif 1; other site 441772007407 active site 441772007408 motif 2; other site 441772007409 motif 3; other site 441772007410 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 441772007411 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 441772007412 Domain of unknown function DUF20; Region: UPF0118; pfam01594 441772007413 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 441772007414 PRC-barrel domain; Region: PRC; pfam05239 441772007415 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 441772007416 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 441772007417 trimerization site [polypeptide binding]; other site 441772007418 active site 441772007419 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 441772007420 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 441772007421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772007422 catalytic residue [active] 441772007423 Transcriptional regulator; Region: Rrf2; cl17282 441772007424 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772007425 recombination factor protein RarA; Reviewed; Region: PRK13342 441772007426 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 441772007427 Walker A motif; other site 441772007428 ATP binding site [chemical binding]; other site 441772007429 Walker B motif; other site 441772007430 arginine finger; other site 441772007431 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 441772007432 histidinol-phosphatase; Provisional; Region: PRK05588 441772007433 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 441772007434 active site 441772007435 Predicted permeases [General function prediction only]; Region: COG0679 441772007436 EDD domain protein, DegV family; Region: DegV; TIGR00762 441772007437 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 441772007438 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 441772007439 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 441772007440 CPxP motif; other site 441772007441 DsrE/DsrF-like family; Region: DrsE; pfam02635 441772007442 ornithine cyclodeaminase; Validated; Region: PRK08618 441772007443 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 441772007444 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772007445 amino acid carrier protein; Region: agcS; TIGR00835 441772007446 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772007447 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 441772007448 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 441772007449 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 441772007450 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 441772007451 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 441772007452 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 441772007453 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 441772007454 dimerization interface [polypeptide binding]; other site 441772007455 ATP binding site [chemical binding]; other site 441772007456 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 441772007457 dimerization interface [polypeptide binding]; other site 441772007458 ATP binding site [chemical binding]; other site 441772007459 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 441772007460 putative active site [active] 441772007461 catalytic triad [active] 441772007462 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772007463 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772007464 phosphoenolpyruvate synthase; Validated; Region: PRK06241 441772007465 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 441772007466 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 441772007467 Phosphopantetheine attachment site; Region: PP-binding; cl09936 441772007468 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 441772007469 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 441772007470 active site 441772007471 AMP binding site [chemical binding]; other site 441772007472 acyl-activating enzyme (AAE) consensus motif; other site 441772007473 CoA binding site [chemical binding]; other site 441772007474 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 441772007475 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 441772007476 dimer interface [polypeptide binding]; other site 441772007477 active site 441772007478 CoA binding pocket [chemical binding]; other site 441772007479 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 441772007480 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 441772007481 AMP-binding enzyme; Region: AMP-binding; pfam00501 441772007482 acyl-activating enzyme (AAE) consensus motif; other site 441772007483 AMP binding site [chemical binding]; other site 441772007484 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 441772007485 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772007486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772007487 Coenzyme A binding pocket [chemical binding]; other site 441772007488 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 441772007489 Ligand Binding Site [chemical binding]; other site 441772007490 hypothetical protein; Validated; Region: PRK07080 441772007491 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 441772007492 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 441772007493 ornithine carbamoyltransferase; Provisional; Region: PRK04284 441772007494 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772007495 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 441772007496 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 441772007497 carbamate kinase; Reviewed; Region: PRK12686 441772007498 putative substrate binding site [chemical binding]; other site 441772007499 nucleotide binding site [chemical binding]; other site 441772007500 nucleotide binding site [chemical binding]; other site 441772007501 homodimer interface [polypeptide binding]; other site 441772007502 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 441772007503 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 441772007504 dimer interface [polypeptide binding]; other site 441772007505 active site 441772007506 glycine-pyridoxal phosphate binding site [chemical binding]; other site 441772007507 folate binding site [chemical binding]; other site 441772007508 Uncharacterized conserved protein [Function unknown]; Region: COG2966 441772007509 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 441772007510 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 441772007511 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; cd10148 441772007512 putative homodimer interface [polypeptide binding]; other site 441772007513 putative homotetramer interface [polypeptide binding]; other site 441772007514 putative allosteric switch controlling residues; other site 441772007515 putative metal binding site [ion binding]; other site 441772007516 putative homodimer-homodimer interface [polypeptide binding]; other site 441772007517 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 441772007518 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 441772007519 active site 441772007520 motif I; other site 441772007521 motif II; other site 441772007522 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 441772007523 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 441772007524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772007525 active site 441772007526 nucleotide binding site [chemical binding]; other site 441772007527 HIGH motif; other site 441772007528 KMSKS motif; other site 441772007529 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 441772007530 NAD(P) binding site [chemical binding]; other site 441772007531 LDH/MDH dimer interface [polypeptide binding]; other site 441772007532 substrate binding site [chemical binding]; other site 441772007533 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772007534 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772007535 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 441772007536 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 441772007537 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 441772007538 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 441772007539 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 441772007540 oligomer interface [polypeptide binding]; other site 441772007541 putative active site [active] 441772007542 metal binding site [ion binding]; metal-binding site 441772007543 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 441772007544 oligomer interface [polypeptide binding]; other site 441772007545 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 441772007546 metal binding site [ion binding]; metal-binding site 441772007547 putative Cl binding site [ion binding]; other site 441772007548 aspartate ring; other site 441772007549 basic sphincter; other site 441772007550 hydrophobic gate; other site 441772007551 periplasmic entrance; other site 441772007552 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 441772007553 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 441772007554 HPr kinase/phosphorylase; Provisional; Region: PRK05428 441772007555 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 441772007556 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 441772007557 Hpr binding site; other site 441772007558 active site 441772007559 homohexamer subunit interaction site [polypeptide binding]; other site 441772007560 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 441772007561 Uncharacterized conserved protein [Function unknown]; Region: COG0398 441772007562 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 441772007563 Uncharacterized conserved protein [Function unknown]; Region: COG0398 441772007564 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 441772007565 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 441772007566 Cysteine-rich domain; Region: CCG; pfam02754 441772007567 Cysteine-rich domain; Region: CCG; pfam02754 441772007568 Phosphotransferase enzyme family; Region: APH; pfam01636 441772007569 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; cl17270 441772007570 active site 441772007571 ATP binding site [chemical binding]; other site 441772007572 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 441772007573 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 441772007574 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 441772007575 Probable Catalytic site; other site 441772007576 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 441772007577 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 441772007578 active site residue [active] 441772007579 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 441772007580 active site residue [active] 441772007581 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 441772007582 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 441772007583 putative active site [active] 441772007584 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 441772007585 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772007586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772007587 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772007588 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 441772007589 active site 441772007590 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 441772007591 active site 441772007592 catalytic residues [active] 441772007593 metal binding site [ion binding]; metal-binding site 441772007594 V-type ATP synthase subunit D; Reviewed; Region: PRK00373 441772007595 V-type ATP synthase subunit B; Provisional; Region: PRK04196 441772007596 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 441772007597 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 441772007598 Walker A motif homologous position; other site 441772007599 Walker B motif; other site 441772007600 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772007601 V-type ATP synthase subunit A; Provisional; Region: PRK04192 441772007602 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 441772007603 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 441772007604 Walker A motif/ATP binding site; other site 441772007605 Walker B motif; other site 441772007606 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 441772007607 V-type ATP synthase subunit F; Provisional; Region: PRK01395 441772007608 V-type ATP synthase subunit C; Provisional; Region: PRK01198 441772007609 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 441772007610 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 441772007611 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 441772007612 V-type ATP synthase subunit K; Validated; Region: PRK06558 441772007613 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 441772007614 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 441772007615 V-type ATP synthase subunit I; Validated; Region: PRK05771 441772007616 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 441772007617 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 441772007618 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 441772007619 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 441772007620 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 441772007621 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 441772007622 Zn binding site [ion binding]; other site 441772007623 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 441772007624 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772007625 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 441772007626 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772007627 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772007628 Soluble P-type ATPase [General function prediction only]; Region: COG4087 441772007629 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772007630 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 441772007631 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 441772007632 DRTGG domain; Region: DRTGG; pfam07085 441772007633 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 441772007634 DHH family; Region: DHH; pfam01368 441772007635 DHHA2 domain; Region: DHHA2; pfam02833 441772007636 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 441772007637 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 441772007638 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 441772007639 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 441772007640 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 441772007641 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 441772007642 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 441772007643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772007644 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772007645 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 441772007646 DNA binding residues [nucleotide binding] 441772007647 Flagellar protein YcgR; Region: YcgR_2; pfam12945 441772007648 PilZ domain; Region: PilZ; pfam07238 441772007649 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 441772007650 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 441772007651 P-loop; other site 441772007652 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 441772007653 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772007654 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 441772007655 FHIPEP family; Region: FHIPEP; pfam00771 441772007656 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 441772007657 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 441772007658 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 441772007659 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 441772007660 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 441772007661 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 441772007662 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 441772007663 flagellar motor protein MotS; Reviewed; Region: PRK06925 441772007664 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 441772007665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 441772007666 ligand binding site [chemical binding]; other site 441772007667 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 441772007668 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 441772007669 Flagellar protein (FlbD); Region: FlbD; pfam06289 441772007670 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 441772007671 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 441772007672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 441772007673 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 441772007674 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 441772007675 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 441772007676 Flagellar FliJ protein; Region: FliJ; pfam02050 441772007677 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 441772007678 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 441772007679 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 441772007680 Walker A motif/ATP binding site; other site 441772007681 Walker B motif; other site 441772007682 Flagellar assembly protein FliH; Region: FliH; pfam02108 441772007683 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 441772007684 FliG C-terminal domain; Region: FliG_C; pfam01706 441772007685 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 441772007686 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 441772007687 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 441772007688 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 441772007689 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 441772007690 flagellin; Provisional; Region: PRK12804 441772007691 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007692 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007693 argininosuccinate lyase; Provisional; Region: PRK00855 441772007694 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 441772007695 active sites [active] 441772007696 tetramer interface [polypeptide binding]; other site 441772007697 argininosuccinate synthase; Provisional; Region: PRK13820 441772007698 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 441772007699 ANP binding site [chemical binding]; other site 441772007700 Substrate Binding Site II [chemical binding]; other site 441772007701 Substrate Binding Site I [chemical binding]; other site 441772007702 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 441772007703 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 441772007704 putative active site [active] 441772007705 catalytic site [active] 441772007706 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 441772007707 putative active site [active] 441772007708 catalytic site [active] 441772007709 Predicted membrane protein [Function unknown]; Region: COG4129 441772007710 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 441772007711 Predicted integral membrane protein [Function unknown]; Region: COG5652 441772007712 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 441772007713 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 441772007714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772007715 NAD(P) binding site [chemical binding]; other site 441772007716 active site 441772007717 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 441772007718 NeuB family; Region: NeuB; pfam03102 441772007719 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 441772007720 NeuB binding interface [polypeptide binding]; other site 441772007721 putative substrate binding site [chemical binding]; other site 441772007722 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 441772007723 ligand binding site; other site 441772007724 tetramer interface; other site 441772007725 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 441772007726 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 441772007727 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 441772007728 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 441772007729 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 441772007730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772007731 UDP-galactopyranose mutase; Region: GLF; pfam03275 441772007732 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 441772007733 Bacterial sugar transferase; Region: Bac_transf; pfam02397 441772007734 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 441772007735 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 441772007736 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 441772007737 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 441772007738 Chain length determinant protein; Region: Wzz; cl15801 441772007739 Transcriptional regulator [Transcription]; Region: LytR; COG1316 441772007740 Putative motility protein; Region: YjfB_motility; pfam14070 441772007741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772007742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772007743 dimer interface [polypeptide binding]; other site 441772007744 putative CheW interface [polypeptide binding]; other site 441772007745 flagellin; Provisional; Region: PRK12804 441772007746 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007747 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007748 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 441772007749 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 441772007750 inhibitor-cofactor binding pocket; inhibition site 441772007751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772007752 catalytic residue [active] 441772007753 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 441772007754 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 441772007755 NAD binding site [chemical binding]; other site 441772007756 substrate binding site [chemical binding]; other site 441772007757 active site 441772007758 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 441772007759 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 441772007760 putative trimer interface [polypeptide binding]; other site 441772007761 putative CoA binding site [chemical binding]; other site 441772007762 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 441772007763 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 441772007764 ligand binding site; other site 441772007765 tetramer interface; other site 441772007766 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772007767 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 441772007768 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 441772007769 NeuB family; Region: NeuB; pfam03102 441772007770 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 441772007771 NeuB binding interface [polypeptide binding]; other site 441772007772 putative substrate binding site [chemical binding]; other site 441772007773 Methyltransferase domain; Region: Methyltransf_31; pfam13847 441772007774 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 441772007775 S-adenosylmethionine binding site [chemical binding]; other site 441772007776 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 441772007777 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 441772007778 active site 441772007779 homodimer interface [polypeptide binding]; other site 441772007780 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 441772007781 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 441772007782 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 441772007783 Substrate binding site; other site 441772007784 metal-binding site 441772007785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 441772007786 flagellin; Provisional; Region: PRK12804 441772007787 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007788 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007789 Flagellar protein FliT; Region: FliT; pfam05400 441772007790 flagellar capping protein; Validated; Region: fliD; PRK07737 441772007791 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 441772007792 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 441772007793 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 441772007794 FlaG protein; Region: FlaG; pfam03646 441772007795 carbon storage regulator; Provisional; Region: PRK01712 441772007796 flagellar assembly protein FliW; Provisional; Region: PRK13285 441772007797 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 441772007798 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 441772007799 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 441772007800 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 441772007801 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 441772007802 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 441772007803 FlgN protein; Region: FlgN; pfam05130 441772007804 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 441772007805 flagellar motor switch protein; Validated; Region: PRK08119 441772007806 CheC-like family; Region: CheC; pfam04509 441772007807 CheC-like family; Region: CheC; pfam04509 441772007808 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 441772007809 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 441772007810 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 441772007811 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 441772007812 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 441772007813 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 441772007814 active site 441772007815 phosphorylation site [posttranslational modification] 441772007816 intermolecular recognition site; other site 441772007817 dimerization interface [polypeptide binding]; other site 441772007818 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 441772007819 CheC-like family; Region: CheC; pfam04509 441772007820 CheC-like family; Region: CheC; pfam04509 441772007821 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 441772007822 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 441772007823 putative binding surface; other site 441772007824 active site 441772007825 P2 response regulator binding domain; Region: P2; pfam07194 441772007826 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 441772007827 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 441772007828 ATP binding site [chemical binding]; other site 441772007829 Mg2+ binding site [ion binding]; other site 441772007830 G-X-G motif; other site 441772007831 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 441772007832 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 441772007833 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 441772007834 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 441772007835 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 441772007836 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 441772007837 active site 441772007838 phosphorylation site [posttranslational modification] 441772007839 intermolecular recognition site; other site 441772007840 dimerization interface [polypeptide binding]; other site 441772007841 CheB methylesterase; Region: CheB_methylest; pfam01339 441772007842 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 441772007843 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 441772007844 Protein of unknown function (DUF342); Region: DUF342; pfam03961 441772007845 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772007846 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 441772007847 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 441772007848 active site turn [active] 441772007849 phosphorylation site [posttranslational modification] 441772007850 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772007851 HPr interaction site; other site 441772007852 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772007853 active site 441772007854 phosphorylation site [posttranslational modification] 441772007855 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772007856 CAT RNA binding domain; Region: CAT_RBD; smart01061 441772007857 PRD domain; Region: PRD; pfam00874 441772007858 PRD domain; Region: PRD; pfam00874 441772007859 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 441772007860 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...; Region: PLPDE_IV; cd00449 441772007861 homodimer interface [polypeptide binding]; other site 441772007862 substrate-cofactor binding pocket; other site 441772007863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772007864 catalytic residue [active] 441772007865 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 441772007866 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 441772007867 motif II; other site 441772007868 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 441772007869 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 441772007870 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 441772007871 dimer interface [polypeptide binding]; other site 441772007872 PYR/PP interface [polypeptide binding]; other site 441772007873 TPP binding site [chemical binding]; other site 441772007874 substrate binding site [chemical binding]; other site 441772007875 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 441772007876 Domain of unknown function; Region: EKR; smart00890 441772007877 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 441772007878 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 441772007879 TPP-binding site [chemical binding]; other site 441772007880 dimer interface [polypeptide binding]; other site 441772007881 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 441772007882 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 441772007883 active site 441772007884 homodimer interface [polypeptide binding]; other site 441772007885 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772007886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772007887 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 441772007888 dimer interface [polypeptide binding]; other site 441772007889 phosphorylation site [posttranslational modification] 441772007890 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 441772007891 ATP binding site [chemical binding]; other site 441772007892 Mg2+ binding site [ion binding]; other site 441772007893 G-X-G motif; other site 441772007894 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 441772007895 DHH family; Region: DHH; pfam01368 441772007896 DHHA1 domain; Region: DHHA1; pfam02272 441772007897 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 441772007898 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 441772007899 AP (apurinic/apyrimidinic) site pocket; other site 441772007900 DNA interaction; other site 441772007901 Metal-binding active site; metal-binding site 441772007902 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 441772007903 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 441772007904 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 441772007905 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772007906 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772007907 Predicted membrane protein [Function unknown]; Region: COG2246 441772007908 GtrA-like protein; Region: GtrA; pfam04138 441772007909 DJ-1 family protein; Region: not_thiJ; TIGR01383 441772007910 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 441772007911 conserved cys residue [active] 441772007912 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 441772007913 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 441772007914 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...; Region: TOP4c; cd00187 441772007915 CAP-like domain; other site 441772007916 active site 441772007917 primary dimer interface [polypeptide binding]; other site 441772007918 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 441772007919 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 441772007920 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 441772007921 ATP binding site [chemical binding]; other site 441772007922 Mg2+ binding site [ion binding]; other site 441772007923 G-X-G motif; other site 441772007924 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 441772007925 anchoring element; other site 441772007926 dimer interface [polypeptide binding]; other site 441772007927 ATP binding site [chemical binding]; other site 441772007928 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 441772007929 active site 441772007930 metal binding site [ion binding]; metal-binding site 441772007931 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 441772007932 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 441772007933 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772007934 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772007935 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772007936 NodB motif; other site 441772007937 active site 441772007938 catalytic site [active] 441772007939 Zn binding site [ion binding]; other site 441772007940 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 441772007941 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 441772007942 NAD binding site [chemical binding]; other site 441772007943 homodimer interface [polypeptide binding]; other site 441772007944 active site 441772007945 substrate binding site [chemical binding]; other site 441772007946 flavodoxin; Provisional; Region: PRK05568 441772007947 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772007948 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772007949 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772007950 Cupin domain; Region: Cupin_2; cl17218 441772007951 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 441772007952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772007953 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 441772007954 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 441772007955 putative dimer interface [polypeptide binding]; other site 441772007956 catalytic triad [active] 441772007957 glycerol kinase; Provisional; Region: glpK; PRK00047 441772007958 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 441772007959 N- and C-terminal domain interface [polypeptide binding]; other site 441772007960 active site 441772007961 MgATP binding site [chemical binding]; other site 441772007962 catalytic site [active] 441772007963 metal binding site [ion binding]; metal-binding site 441772007964 glycerol binding site [chemical binding]; other site 441772007965 homotetramer interface [polypeptide binding]; other site 441772007966 homodimer interface [polypeptide binding]; other site 441772007967 FBP binding site [chemical binding]; other site 441772007968 protein IIAGlc interface [polypeptide binding]; other site 441772007969 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 441772007970 amphipathic channel; other site 441772007971 Asn-Pro-Ala signature motifs; other site 441772007972 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 441772007973 VanZ like family; Region: VanZ; pfam04892 441772007974 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772007975 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772007976 Walker A/P-loop; other site 441772007977 ATP binding site [chemical binding]; other site 441772007978 Q-loop/lid; other site 441772007979 ABC transporter signature motif; other site 441772007980 Walker B; other site 441772007981 D-loop; other site 441772007982 H-loop/switch region; other site 441772007983 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772007984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772007985 DNA-binding site [nucleotide binding]; DNA binding site 441772007986 VanZ like family; Region: VanZ; cl01971 441772007987 hybrid cluster protein; Provisional; Region: PRK05290 441772007988 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 441772007989 ACS interaction site; other site 441772007990 CODH interaction site; other site 441772007991 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 441772007992 hybrid metal cluster; other site 441772007993 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 441772007994 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 441772007995 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 441772007996 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 441772007997 Spore germination protein; Region: Spore_permease; pfam03845 441772007998 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772007999 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 441772008000 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 441772008001 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 441772008002 active site 441772008003 multimer interface [polypeptide binding]; other site 441772008004 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 441772008005 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 441772008006 NodB motif; other site 441772008007 active site 441772008008 catalytic site [active] 441772008009 Zn binding site [ion binding]; other site 441772008010 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 441772008011 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 441772008012 ATP binding site [chemical binding]; other site 441772008013 Mg++ binding site [ion binding]; other site 441772008014 motif III; other site 441772008015 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 441772008016 nucleotide binding region [chemical binding]; other site 441772008017 ATP-binding site [chemical binding]; other site 441772008018 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 441772008019 RNA binding site [nucleotide binding]; other site 441772008020 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772008021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772008022 dimer interface [polypeptide binding]; other site 441772008023 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 441772008024 putative CheW interface [polypeptide binding]; other site 441772008025 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 441772008026 Ligand Binding Site [chemical binding]; other site 441772008027 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 441772008028 4Fe-4S binding domain; Region: Fer4_5; pfam12801 441772008029 4Fe-4S binding domain; Region: Fer4; cl02805 441772008030 glutaminase; Provisional; Region: PRK00971 441772008031 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 441772008032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 441772008033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 441772008034 Cache domain; Region: Cache_1; pfam02743 441772008035 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 441772008036 dimerization interface [polypeptide binding]; other site 441772008037 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772008038 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772008039 dimer interface [polypeptide binding]; other site 441772008040 putative CheW interface [polypeptide binding]; other site 441772008041 TraX protein; Region: TraX; cl05434 441772008042 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 441772008043 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 441772008044 dimer interface [polypeptide binding]; other site 441772008045 putative radical transfer pathway; other site 441772008046 diiron center [ion binding]; other site 441772008047 tyrosyl radical; other site 441772008048 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07088 441772008049 ATP cone domain; Region: ATP-cone; pfam03477 441772008050 Class I ribonucleotide reductase; Region: RNR_I; cd01679 441772008051 active site 441772008052 dimer interface [polypeptide binding]; other site 441772008053 catalytic residues [active] 441772008054 effector binding site; other site 441772008055 R2 peptide binding site; other site 441772008056 Putative amidase domain; Region: Amidase_6; pfam12671 441772008057 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 441772008058 DNA polymerase IV; Provisional; Region: PRK14133 441772008059 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 441772008060 active site 441772008061 DNA binding site [nucleotide binding] 441772008062 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 441772008063 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 441772008064 homodimer interface [polypeptide binding]; other site 441772008065 active site 441772008066 FMN binding site [chemical binding]; other site 441772008067 substrate binding site [chemical binding]; other site 441772008068 4Fe-4S binding domain; Region: Fer4; pfam00037 441772008069 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 441772008070 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772008071 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 441772008072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008073 active site 441772008074 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 441772008075 Uncharacterized conserved protein [Function unknown]; Region: COG1434 441772008076 putative active site [active] 441772008077 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 441772008078 MarR family; Region: MarR_2; pfam12802 441772008079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772008080 Walker A/P-loop; other site 441772008081 ATP binding site [chemical binding]; other site 441772008082 Q-loop/lid; other site 441772008083 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 441772008084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772008085 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 441772008086 Walker A/P-loop; other site 441772008087 ATP binding site [chemical binding]; other site 441772008088 Q-loop/lid; other site 441772008089 ABC transporter signature motif; other site 441772008090 Walker B; other site 441772008091 D-loop; other site 441772008092 H-loop/switch region; other site 441772008093 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 441772008094 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 441772008095 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 441772008096 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 441772008097 Carbohydrate binding domain; Region: CBM_25; smart01066 441772008098 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 441772008099 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 441772008100 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 441772008101 dimerization interface [polypeptide binding]; other site 441772008102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772008103 dimer interface [polypeptide binding]; other site 441772008104 putative CheW interface [polypeptide binding]; other site 441772008105 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_17; cd04676 441772008106 nudix motif; other site 441772008107 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772008108 metal binding site 2 [ion binding]; metal-binding site 441772008109 putative DNA binding helix; other site 441772008110 metal binding site 1 [ion binding]; metal-binding site 441772008111 dimer interface [polypeptide binding]; other site 441772008112 structural Zn2+ binding site [ion binding]; other site 441772008113 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 441772008114 Glyco_18 domain; Region: Glyco_18; smart00636 441772008115 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 441772008116 active site 441772008117 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 441772008118 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 441772008119 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 441772008120 active site 441772008121 trimer interface [polypeptide binding]; other site 441772008122 allosteric site; other site 441772008123 active site lid [active] 441772008124 hexamer (dimer of trimers) interface [polypeptide binding]; other site 441772008125 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 441772008126 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 441772008127 active site 441772008128 dimer interface [polypeptide binding]; other site 441772008129 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 441772008130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772008131 DNA-binding site [nucleotide binding]; DNA binding site 441772008132 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 441772008133 PQQ-like domain; Region: PQQ_2; pfam13360 441772008134 PQQ-like domain; Region: PQQ_2; pfam13360 441772008135 CAT RNA binding domain; Region: CAT_RBD; smart01061 441772008136 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772008137 PRD domain; Region: PRD; pfam00874 441772008138 PRD domain; Region: PRD; pfam00874 441772008139 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772008140 HPr interaction site; other site 441772008141 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772008142 active site 441772008143 phosphorylation site [posttranslational modification] 441772008144 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772008145 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 441772008146 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 441772008147 active site turn [active] 441772008148 phosphorylation site [posttranslational modification] 441772008149 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772008150 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772008151 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 441772008152 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 441772008153 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 441772008154 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772008155 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 441772008156 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772008157 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 441772008158 FAD binding site [chemical binding]; other site 441772008159 homotetramer interface [polypeptide binding]; other site 441772008160 substrate binding pocket [chemical binding]; other site 441772008161 catalytic base [active] 441772008162 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772008163 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772008164 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 441772008165 Rubredoxin; Region: Rubredoxin; pfam00301 441772008166 iron binding site [ion binding]; other site 441772008167 HTH-like domain; Region: HTH_21; pfam13276 441772008168 Integrase core domain; Region: rve; pfam00665 441772008169 Integrase core domain; Region: rve_2; pfam13333 441772008170 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 441772008171 Coenzyme A transferase; Region: CoA_trans; cl17247 441772008172 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 441772008173 Ligand binding site; other site 441772008174 metal-binding site 441772008175 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 441772008176 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 441772008177 catalytic loop [active] 441772008178 iron binding site [ion binding]; other site 441772008179 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772008180 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 441772008181 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 441772008182 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 441772008183 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 441772008184 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772008185 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 441772008186 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 441772008187 active site turn [active] 441772008188 phosphorylation site [posttranslational modification] 441772008189 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 441772008190 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 441772008191 HPr interaction site; other site 441772008192 glycerol kinase (GK) interaction site [polypeptide binding]; other site 441772008193 active site 441772008194 phosphorylation site [posttranslational modification] 441772008195 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 441772008196 beta-galactosidase; Region: BGL; TIGR03356 441772008197 transcriptional antiterminator BglG; Provisional; Region: PRK09772 441772008198 CAT RNA binding domain; Region: CAT_RBD; smart01061 441772008199 PRD domain; Region: PRD; pfam00874 441772008200 PRD domain; Region: PRD; pfam00874 441772008201 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 441772008202 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 441772008203 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 441772008204 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 441772008205 motif II; other site 441772008206 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 441772008207 amidase catalytic site [active] 441772008208 Zn binding residues [ion binding]; other site 441772008209 substrate binding site [chemical binding]; other site 441772008210 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772008211 chloramphenicol/florfenicol resistance protein; Provisional; Region: PRK14453 441772008212 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 441772008213 FeS/SAM binding site; other site 441772008214 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772008215 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772008216 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772008217 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772008218 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 441772008219 TRAM domain; Region: TRAM; pfam01938 441772008220 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 441772008221 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 441772008222 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 441772008223 S-adenosylmethionine binding site [chemical binding]; other site 441772008224 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 441772008225 Sulfatase; Region: Sulfatase; pfam00884 441772008226 hypothetical protein; Provisional; Region: PRK10621 441772008227 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772008228 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 441772008229 homopentamer interface [polypeptide binding]; other site 441772008230 active site 441772008231 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 441772008232 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 441772008233 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 441772008234 dimerization interface [polypeptide binding]; other site 441772008235 active site 441772008236 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 441772008237 Lumazine binding domain; Region: Lum_binding; pfam00677 441772008238 Lumazine binding domain; Region: Lum_binding; pfam00677 441772008239 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 441772008240 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 441772008241 catalytic motif [active] 441772008242 Zn binding site [ion binding]; other site 441772008243 RibD C-terminal domain; Region: RibD_C; cl17279 441772008244 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 441772008245 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 441772008246 metal binding site [ion binding]; metal-binding site 441772008247 dimer interface [polypeptide binding]; other site 441772008248 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772008249 magnesium-transporting ATPase; Provisional; Region: PRK15122 441772008250 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772008251 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772008252 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772008253 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 441772008254 motif II; other site 441772008255 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 441772008256 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 441772008257 active site 441772008258 Spore germination protein; Region: Spore_permease; cl17796 441772008259 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 441772008260 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 441772008261 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 441772008262 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 441772008263 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 441772008264 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 441772008265 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 441772008266 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 441772008267 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 441772008268 purine monophosphate binding site [chemical binding]; other site 441772008269 dimer interface [polypeptide binding]; other site 441772008270 putative catalytic residues [active] 441772008271 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 441772008272 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 441772008273 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 441772008274 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 441772008275 active site 441772008276 substrate binding site [chemical binding]; other site 441772008277 cosubstrate binding site; other site 441772008278 catalytic site [active] 441772008279 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 441772008280 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 441772008281 dimerization interface [polypeptide binding]; other site 441772008282 putative ATP binding site [chemical binding]; other site 441772008283 amidophosphoribosyltransferase; Provisional; Region: PRK05793 441772008284 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 441772008285 active site 441772008286 tetramer interface [polypeptide binding]; other site 441772008287 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008288 active site 441772008289 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 441772008290 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 441772008291 ATP binding site [chemical binding]; other site 441772008292 active site 441772008293 substrate binding site [chemical binding]; other site 441772008294 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 441772008295 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 441772008296 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 441772008297 catalytic loop [active] 441772008298 iron binding site [ion binding]; other site 441772008299 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 441772008300 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 441772008301 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 441772008302 putative selenium metabolism hydrolase; Region: selenium_YgeY; TIGR03526 441772008303 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 441772008304 putative metal binding site [ion binding]; other site 441772008305 putative dimer interface [polypeptide binding]; other site 441772008306 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 441772008307 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 441772008308 active site 441772008309 putative substrate binding pocket [chemical binding]; other site 441772008310 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 441772008311 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772008312 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 441772008313 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772008314 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 441772008315 phenylhydantoinase; Validated; Region: PRK08323 441772008316 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 441772008317 tetramer interface [polypeptide binding]; other site 441772008318 active site 441772008319 xanthine permease; Region: pbuX; TIGR03173 441772008320 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 441772008321 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 441772008322 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772008323 catalytic residue [active] 441772008324 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772008325 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 441772008326 Walker A motif; other site 441772008327 ATP binding site [chemical binding]; other site 441772008328 Walker B motif; other site 441772008329 arginine finger; other site 441772008330 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772008331 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 441772008332 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 441772008333 Ligand binding site; other site 441772008334 metal-binding site 441772008335 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 441772008336 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 441772008337 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 441772008338 XdhC Rossmann domain; Region: XdhC_C; pfam13478 441772008339 NTPase; Region: NTPase_1; pfam03266 441772008340 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772008341 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 441772008342 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 441772008343 ABC-ATPase subunit interface; other site 441772008344 dimer interface [polypeptide binding]; other site 441772008345 putative PBP binding regions; other site 441772008346 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 441772008347 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 441772008348 Walker A/P-loop; other site 441772008349 ATP binding site [chemical binding]; other site 441772008350 Q-loop/lid; other site 441772008351 ABC transporter signature motif; other site 441772008352 Walker B; other site 441772008353 D-loop; other site 441772008354 H-loop/switch region; other site 441772008355 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 441772008356 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 441772008357 intersubunit interface [polypeptide binding]; other site 441772008358 ALIX V-shaped domain binding to HIV; Region: ALIX_LYPXL_bnd; pfam13949 441772008359 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 441772008360 active site 441772008361 catalytic triad [active] 441772008362 oxyanion hole [active] 441772008363 Uncharacterized conserved protein [Function unknown]; Region: COG1434 441772008364 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 441772008365 putative active site [active] 441772008366 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772008367 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 441772008368 amino acid carrier protein; Region: agcS; TIGR00835 441772008369 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 441772008370 Part of AAA domain; Region: AAA_19; pfam13245 441772008371 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 441772008372 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772008373 tetramer interface [polypeptide binding]; other site 441772008374 catalytic Zn binding site [ion binding]; other site 441772008375 NADP binding site [chemical binding]; other site 441772008376 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 441772008377 PAS domain; Region: PAS_9; pfam13426 441772008378 putative active site [active] 441772008379 heme pocket [chemical binding]; other site 441772008380 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 441772008381 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 441772008382 Walker A motif; other site 441772008383 ATP binding site [chemical binding]; other site 441772008384 Walker B motif; other site 441772008385 arginine finger; other site 441772008386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772008387 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 441772008388 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 441772008389 Ligand Binding Site [chemical binding]; other site 441772008390 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 441772008391 putative metal binding site [ion binding]; other site 441772008392 putative dimer interface [polypeptide binding]; other site 441772008393 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 441772008394 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 441772008395 Domain of unknown function DUF21; Region: DUF21; pfam01595 441772008396 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 441772008397 Transporter associated domain; Region: CorC_HlyC; pfam03471 441772008398 Domain of unknown function DUF77; Region: DUF77; pfam01910 441772008399 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 441772008400 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 441772008401 amidophosphoribosyltransferase; Provisional; Region: PRK05793 441772008402 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 441772008403 active site 441772008404 tetramer interface [polypeptide binding]; other site 441772008405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008406 active site 441772008407 Protein of unknown function (DUF503); Region: DUF503; pfam04456 441772008408 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 441772008409 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 441772008410 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772008411 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772008412 Walker A/P-loop; other site 441772008413 ATP binding site [chemical binding]; other site 441772008414 Q-loop/lid; other site 441772008415 ABC transporter signature motif; other site 441772008416 Walker B; other site 441772008417 D-loop; other site 441772008418 H-loop/switch region; other site 441772008419 Predicted transcriptional regulators [Transcription]; Region: COG1725 441772008420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772008421 DNA-binding site [nucleotide binding]; DNA binding site 441772008422 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 441772008423 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 441772008424 Ferredoxin [Energy production and conversion]; Region: COG1146 441772008425 4Fe-4S binding domain; Region: Fer4_6; pfam12837 441772008426 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 441772008427 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 441772008428 ligand binding site [chemical binding]; other site 441772008429 flexible hinge region; other site 441772008430 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 441772008431 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772008432 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 441772008433 Predicted membrane protein [Function unknown]; Region: COG1511 441772008434 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 441772008435 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 441772008436 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772008437 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 441772008438 active site 441772008439 catalytic site [active] 441772008440 metal binding site [ion binding]; metal-binding site 441772008441 dimer interface [polypeptide binding]; other site 441772008442 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 441772008443 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772008444 catalytic residue [active] 441772008445 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 441772008446 Domain of unknown function DUF21; Region: DUF21; pfam01595 441772008447 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 441772008448 Transporter associated domain; Region: CorC_HlyC; pfam03471 441772008449 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 441772008450 Putative zinc ribbon domain; Region: DUF164; pfam02591 441772008451 Uncharacterized conserved protein [Function unknown]; Region: COG0327 441772008452 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 441772008453 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 441772008454 Family of unknown function (DUF633); Region: DUF633; pfam04816 441772008455 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 441772008456 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 441772008457 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 441772008458 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 441772008459 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772008460 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772008461 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 441772008462 DNA binding residues [nucleotide binding] 441772008463 DNA primase, catalytic core; Region: dnaG; TIGR01391 441772008464 CHC2 zinc finger; Region: zf-CHC2; pfam01807 441772008465 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 441772008466 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 441772008467 active site 441772008468 metal binding site [ion binding]; metal-binding site 441772008469 interdomain interaction site; other site 441772008470 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 441772008471 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 441772008472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008473 Zn2+ binding site [ion binding]; other site 441772008474 Mg2+ binding site [ion binding]; other site 441772008475 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 441772008476 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 441772008477 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 441772008478 pyruvate phosphate dikinase; Provisional; Region: PRK09279 441772008479 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 441772008480 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 441772008481 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 441772008482 HTH domain; Region: HTH_11; pfam08279 441772008483 FOG: CBS domain [General function prediction only]; Region: COG0517 441772008484 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 441772008485 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 441772008486 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 441772008487 GTPase Era; Reviewed; Region: era; PRK00089 441772008488 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 441772008489 G1 box; other site 441772008490 GTP/Mg2+ binding site [chemical binding]; other site 441772008491 Switch I region; other site 441772008492 G2 box; other site 441772008493 Switch II region; other site 441772008494 G3 box; other site 441772008495 G4 box; other site 441772008496 G5 box; other site 441772008497 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 441772008498 active site 441772008499 catalytic motif [active] 441772008500 Zn binding site [ion binding]; other site 441772008501 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 441772008502 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 441772008503 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 441772008504 active site 441772008505 metal-binding heat shock protein; Provisional; Region: PRK00016 441772008506 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 441772008507 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 441772008508 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008509 Zn2+ binding site [ion binding]; other site 441772008510 Mg2+ binding site [ion binding]; other site 441772008511 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 441772008512 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 441772008513 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 441772008514 Yqey-like protein; Region: YqeY; pfam09424 441772008515 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 441772008516 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 441772008517 nucleotide binding site/active site [active] 441772008518 HIT family signature motif; other site 441772008519 catalytic residue [active] 441772008520 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 441772008521 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 441772008522 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 441772008523 FeS/SAM binding site; other site 441772008524 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 441772008525 RNA methyltransferase, RsmE family; Region: TIGR00046 441772008526 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 441772008527 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 441772008528 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 441772008529 S-adenosylmethionine binding site [chemical binding]; other site 441772008530 chaperone protein DnaJ; Provisional; Region: PRK14297 441772008531 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 441772008532 HSP70 interaction site [polypeptide binding]; other site 441772008533 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 441772008534 substrate binding site [polypeptide binding]; other site 441772008535 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 441772008536 Zn binding sites [ion binding]; other site 441772008537 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 441772008538 dimer interface [polypeptide binding]; other site 441772008539 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 441772008540 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 441772008541 nucleotide binding site [chemical binding]; other site 441772008542 NEF interaction site [polypeptide binding]; other site 441772008543 SBD interface [polypeptide binding]; other site 441772008544 GrpE; Region: GrpE; pfam01025 441772008545 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 441772008546 dimer interface [polypeptide binding]; other site 441772008547 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 441772008548 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 441772008549 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 441772008550 DNA-binding site [nucleotide binding]; DNA binding site 441772008551 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 441772008552 HemN C-terminal domain; Region: HemN_C; pfam06969 441772008553 GTP-binding protein LepA; Provisional; Region: PRK05433 441772008554 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 441772008555 G1 box; other site 441772008556 putative GEF interaction site [polypeptide binding]; other site 441772008557 GTP/Mg2+ binding site [chemical binding]; other site 441772008558 Switch I region; other site 441772008559 G2 box; other site 441772008560 G3 box; other site 441772008561 Switch II region; other site 441772008562 G4 box; other site 441772008563 G5 box; other site 441772008564 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 441772008565 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 441772008566 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 441772008567 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 441772008568 stage II sporulation protein P; Region: spore_II_P; TIGR02867 441772008569 germination protease; Provisional; Region: PRK12362 441772008570 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 441772008571 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 441772008572 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 441772008573 Competence protein; Region: Competence; pfam03772 441772008574 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 441772008575 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 441772008576 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 441772008577 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 441772008578 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 441772008579 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 441772008580 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 441772008581 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 441772008582 G1 box; other site 441772008583 putative GEF interaction site [polypeptide binding]; other site 441772008584 GTP/Mg2+ binding site [chemical binding]; other site 441772008585 Switch I region; other site 441772008586 G2 box; other site 441772008587 G3 box; other site 441772008588 Switch II region; other site 441772008589 G4 box; other site 441772008590 G5 box; other site 441772008591 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 441772008592 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 441772008593 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 441772008594 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 441772008595 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 441772008596 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 441772008597 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 441772008598 SLBB domain; Region: SLBB; pfam10531 441772008599 Helix-hairpin-helix motif; Region: HHH; pfam00633 441772008600 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 441772008601 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 441772008602 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 441772008603 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 441772008604 RNA binding surface [nucleotide binding]; other site 441772008605 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 441772008606 active site 441772008607 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 441772008608 homotrimer interaction site [polypeptide binding]; other site 441772008609 putative active site [active] 441772008610 Transcriptional regulator [Transcription]; Region: LytR; COG1316 441772008611 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 441772008612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008613 Zn2+ binding site [ion binding]; other site 441772008614 Mg2+ binding site [ion binding]; other site 441772008615 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 441772008616 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 441772008617 active site 441772008618 (T/H)XGH motif; other site 441772008619 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 441772008620 GTPase CgtA; Reviewed; Region: obgE; PRK12297 441772008621 GTP1/OBG; Region: GTP1_OBG; pfam01018 441772008622 Obg GTPase; Region: Obg; cd01898 441772008623 G1 box; other site 441772008624 GTP/Mg2+ binding site [chemical binding]; other site 441772008625 Switch I region; other site 441772008626 G2 box; other site 441772008627 G3 box; other site 441772008628 Switch II region; other site 441772008629 G4 box; other site 441772008630 G5 box; other site 441772008631 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 441772008632 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 441772008633 hypothetical protein; Provisional; Region: PRK14553 441772008634 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 441772008635 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 441772008636 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 441772008637 homodimer interface [polypeptide binding]; other site 441772008638 oligonucleotide binding site [chemical binding]; other site 441772008639 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 441772008640 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 441772008641 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 441772008642 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 441772008643 FeS/SAM binding site; other site 441772008644 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 441772008645 Peptidase family M50; Region: Peptidase_M50; pfam02163 441772008646 active site 441772008647 putative substrate binding region [chemical binding]; other site 441772008648 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 441772008649 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772008650 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 441772008651 cell division topological specificity factor MinE; Provisional; Region: PRK13987 441772008652 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 441772008653 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 441772008654 Switch I; other site 441772008655 Switch II; other site 441772008656 septum formation inhibitor; Reviewed; Region: minC; PRK00513 441772008657 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 441772008658 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772008659 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772008660 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 441772008661 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 441772008662 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 441772008663 rod shape-determining protein MreC; Provisional; Region: PRK13922 441772008664 rod shape-determining protein MreC; Region: MreC; pfam04085 441772008665 rod shape-determining protein MreB; Provisional; Region: PRK13927 441772008666 MreB and similar proteins; Region: MreB_like; cd10225 441772008667 nucleotide binding site [chemical binding]; other site 441772008668 Mg binding site [ion binding]; other site 441772008669 putative protofilament interaction site [polypeptide binding]; other site 441772008670 RodZ interaction site [polypeptide binding]; other site 441772008671 hypothetical protein; Reviewed; Region: PRK00024 441772008672 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 441772008673 helix-hairpin-helix signature motif; other site 441772008674 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 441772008675 MPN+ (JAMM) motif; other site 441772008676 Zinc-binding site [ion binding]; other site 441772008677 Maf-like protein; Reviewed; Region: PRK00078 441772008678 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 441772008679 active site 441772008680 dimer interface [polypeptide binding]; other site 441772008681 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 441772008682 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 441772008683 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 441772008684 hypothetical protein; Provisional; Region: PRK04435 441772008685 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; cl17393 441772008686 DNA-binding interface [nucleotide binding]; DNA binding site 441772008687 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 441772008688 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 441772008689 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...; Region: LT_GEWL; cd00254 441772008690 N-acetyl-D-glucosamine binding site [chemical binding]; other site 441772008691 catalytic residue [active] 441772008692 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 441772008693 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 441772008694 CoA-binding site [chemical binding]; other site 441772008695 ATP-binding [chemical binding]; other site 441772008696 DNA polymerase I; Provisional; Region: PRK05755 441772008697 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 441772008698 active site 441772008699 metal binding site 1 [ion binding]; metal-binding site 441772008700 putative 5' ssDNA interaction site; other site 441772008701 metal binding site 3; metal-binding site 441772008702 metal binding site 2 [ion binding]; metal-binding site 441772008703 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 441772008704 putative DNA binding site [nucleotide binding]; other site 441772008705 putative metal binding site [ion binding]; other site 441772008706 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 441772008707 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 441772008708 active site 441772008709 DNA binding site [nucleotide binding] 441772008710 catalytic site [active] 441772008711 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 441772008712 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 441772008713 Tetramer interface [polypeptide binding]; other site 441772008714 active site 441772008715 FMN-binding site [chemical binding]; other site 441772008716 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772008717 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 441772008718 active site 441772008719 metal binding site [ion binding]; metal-binding site 441772008720 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772008721 Haemolysin XhlA; Region: XhlA; pfam10779 441772008722 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 441772008723 Caspase domain; Region: Peptidase_C14; pfam00656 441772008724 DivIVA protein; Region: DivIVA; pfam05103 441772008725 hypothetical protein; Validated; Region: PRK08116 441772008726 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 441772008727 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; cl17189 441772008728 Walker A motif; other site 441772008729 ATP binding site [chemical binding]; other site 441772008730 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 441772008731 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 441772008732 non-specific DNA binding site [nucleotide binding]; other site 441772008733 salt bridge; other site 441772008734 sequence-specific DNA binding site [nucleotide binding]; other site 441772008735 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 441772008736 non-specific DNA binding site [nucleotide binding]; other site 441772008737 salt bridge; other site 441772008738 sequence-specific DNA binding site [nucleotide binding]; other site 441772008739 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772008740 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 441772008741 non-specific DNA binding site [nucleotide binding]; other site 441772008742 salt bridge; other site 441772008743 sequence-specific DNA binding site [nucleotide binding]; other site 441772008744 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 441772008745 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772008746 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 441772008747 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 441772008748 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 441772008749 dimer interface [polypeptide binding]; other site 441772008750 anticodon binding site; other site 441772008751 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...; Region: AspRS_core; cd00777 441772008752 homodimer interface [polypeptide binding]; other site 441772008753 motif 1; other site 441772008754 active site 441772008755 motif 2; other site 441772008756 GAD domain; Region: GAD; pfam02938 441772008757 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...; Region: AspRS_core; cd00777 441772008758 motif 3; other site 441772008759 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 441772008760 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...; Region: HisRS-like_core; cd00773 441772008761 dimer interface [polypeptide binding]; other site 441772008762 motif 1; other site 441772008763 active site 441772008764 motif 2; other site 441772008765 motif 3; other site 441772008766 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 441772008767 anticodon binding site; other site 441772008768 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 441772008769 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 441772008770 FeS/SAM binding site; other site 441772008771 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 441772008772 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 441772008773 putative active site [active] 441772008774 dimerization interface [polypeptide binding]; other site 441772008775 putative tRNAtyr binding site [nucleotide binding]; other site 441772008776 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 441772008777 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772008778 Zn2+ binding site [ion binding]; other site 441772008779 Mg2+ binding site [ion binding]; other site 441772008780 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 441772008781 synthetase active site [active] 441772008782 NTP binding site [chemical binding]; other site 441772008783 metal binding site [ion binding]; metal-binding site 441772008784 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 441772008785 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 441772008786 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008787 active site 441772008788 DHH family; Region: DHH; pfam01368 441772008789 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 441772008790 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 441772008791 Protein export membrane protein; Region: SecD_SecF; pfam02355 441772008792 protein-export membrane protein SecD; Region: secD; TIGR01129 441772008793 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 441772008794 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 441772008795 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 441772008796 FeS/SAM binding site; other site 441772008797 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 441772008798 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 441772008799 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 441772008800 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 441772008801 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 441772008802 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 441772008803 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 441772008804 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 441772008805 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 441772008806 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 441772008807 Walker A motif; other site 441772008808 ATP binding site [chemical binding]; other site 441772008809 Walker B motif; other site 441772008810 arginine finger; other site 441772008811 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 441772008812 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 441772008813 RuvA N terminal domain; Region: RuvA_N; pfam01330 441772008814 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 441772008815 hypothetical protein; Validated; Region: PRK00110 441772008816 Uncharacterized conserved protein [Function unknown]; Region: COG1739 441772008817 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 441772008818 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 441772008819 HEAT repeats; Region: HEAT_2; pfam13646 441772008820 HEAT-like repeat; Region: HEAT_EZ; pfam13513 441772008821 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 441772008822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 441772008823 DNA-binding site [nucleotide binding]; DNA binding site 441772008824 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 441772008825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772008826 homodimer interface [polypeptide binding]; other site 441772008827 catalytic residue [active] 441772008828 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 441772008829 active site 441772008830 NTP binding site [chemical binding]; other site 441772008831 metal binding triad [ion binding]; metal-binding site 441772008832 antibiotic binding site [chemical binding]; other site 441772008833 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 441772008834 Rubredoxin; Region: Rubredoxin; pfam00301 441772008835 iron binding site [ion binding]; other site 441772008836 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 441772008837 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 441772008838 HflX GTPase family; Region: HflX; cd01878 441772008839 G1 box; other site 441772008840 GTP/Mg2+ binding site [chemical binding]; other site 441772008841 Switch I region; other site 441772008842 G2 box; other site 441772008843 G3 box; other site 441772008844 Switch II region; other site 441772008845 G4 box; other site 441772008846 G5 box; other site 441772008847 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772008848 active site 441772008849 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 441772008850 Transglycosylase; Region: Transgly; pfam00912 441772008851 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 441772008852 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 441772008853 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 441772008854 stage V sporulation protein AD; Validated; Region: PRK08304 441772008855 stage V sporulation protein AD; Provisional; Region: PRK12404 441772008856 SpoVA protein; Region: SpoVA; cl04298 441772008857 sporulation sigma factor SigF; Validated; Region: PRK05572 441772008858 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772008859 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 441772008860 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 441772008861 DNA binding residues [nucleotide binding] 441772008862 anti-sigma F factor; Provisional; Region: PRK03660 441772008863 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 441772008864 ATP binding site [chemical binding]; other site 441772008865 Mg2+ binding site [ion binding]; other site 441772008866 G-X-G motif; other site 441772008867 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 441772008868 anti sigma factor interaction site; other site 441772008869 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 441772008870 regulatory phosphorylation site [posttranslational modification]; other site 441772008871 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 441772008872 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 441772008873 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 441772008874 NodB motif; other site 441772008875 active site 441772008876 catalytic site [active] 441772008877 Cd binding site [ion binding]; other site 441772008878 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 441772008879 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 441772008880 Bacterial sugar transferase; Region: Bac_transf; pfam02397 441772008881 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 441772008882 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 441772008883 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 441772008884 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 441772008885 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 441772008886 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 441772008887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772008888 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772008889 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 441772008890 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 441772008891 O-Antigen ligase; Region: Wzy_C; pfam04932 441772008892 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 441772008893 putative glycosyl transferase; Provisional; Region: PRK10307 441772008894 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 441772008895 active site 441772008896 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 441772008897 homodimer interface [polypeptide binding]; other site 441772008898 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 441772008899 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772008900 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 441772008901 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 441772008902 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008903 Leucine-rich repeats; other site 441772008904 Substrate binding site [chemical binding]; other site 441772008905 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008906 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008907 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008908 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 441772008909 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 441772008910 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 441772008911 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 441772008912 putative trimer interface [polypeptide binding]; other site 441772008913 putative CoA binding site [chemical binding]; other site 441772008914 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 441772008915 putative trimer interface [polypeptide binding]; other site 441772008916 putative active site [active] 441772008917 putative substrate binding site [chemical binding]; other site 441772008918 putative CoA binding site [chemical binding]; other site 441772008919 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 441772008920 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 441772008921 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 441772008922 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 441772008923 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 441772008924 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 441772008925 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 441772008926 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 441772008927 NAD(P) binding site [chemical binding]; other site 441772008928 homodimer interface [polypeptide binding]; other site 441772008929 substrate binding site [chemical binding]; other site 441772008930 active site 441772008931 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 441772008932 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008933 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008934 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008935 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008936 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772008937 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772008938 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 441772008939 active site 441772008940 metal binding site [ion binding]; metal-binding site 441772008941 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008942 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772008943 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 441772008944 active site 441772008945 metal binding site [ion binding]; metal-binding site 441772008946 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772008947 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 441772008948 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 441772008949 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 441772008950 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 441772008951 active site 441772008952 tetramer interface; other site 441772008953 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772008954 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 441772008955 binding surface 441772008956 TPR motif; other site 441772008957 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 441772008958 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 441772008959 active site 441772008960 substrate binding site [chemical binding]; other site 441772008961 metal binding site [ion binding]; metal-binding site 441772008962 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 441772008963 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 441772008964 5S rRNA interface [nucleotide binding]; other site 441772008965 CTC domain interface [polypeptide binding]; other site 441772008966 L16 interface [polypeptide binding]; other site 441772008967 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 441772008968 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 441772008969 homodimer interface [polypeptide binding]; other site 441772008970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772008971 catalytic residue [active] 441772008972 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 441772008973 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 441772008974 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 441772008975 active site 441772008976 substrate binding site [chemical binding]; other site 441772008977 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 441772008978 FMN binding site [chemical binding]; other site 441772008979 putative catalytic residues [active] 441772008980 Uncharacterized conserved protein [Function unknown]; Region: COG1683 441772008981 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 441772008982 MutS domain III; Region: MutS_III; pfam05192 441772008983 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 441772008984 Walker A/P-loop; other site 441772008985 ATP binding site [chemical binding]; other site 441772008986 Q-loop/lid; other site 441772008987 ABC transporter signature motif; other site 441772008988 Walker B; other site 441772008989 D-loop; other site 441772008990 H-loop/switch region; other site 441772008991 Smr domain; Region: Smr; pfam01713 441772008992 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 441772008993 Peptidase family U32; Region: Peptidase_U32; pfam01136 441772008994 Collagenase; Region: DUF3656; pfam12392 441772008995 Peptidase family U32; Region: Peptidase_U32; cl03113 441772008996 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 441772008997 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 441772008998 putative metal binding site; other site 441772008999 Cell division protein ZapA; Region: ZapA; pfam05164 441772009000 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 441772009001 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 441772009002 putative tRNA-binding site [nucleotide binding]; other site 441772009003 B3/4 domain; Region: B3_4; pfam03483 441772009004 tRNA synthetase B5 domain; Region: B5; smart00874 441772009005 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 441772009006 dimer interface [polypeptide binding]; other site 441772009007 motif 1; other site 441772009008 motif 3; other site 441772009009 motif 2; other site 441772009010 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 441772009011 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 441772009012 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 441772009013 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 441772009014 dimer interface [polypeptide binding]; other site 441772009015 motif 1; other site 441772009016 active site 441772009017 motif 2; other site 441772009018 motif 3; other site 441772009019 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 441772009020 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 441772009021 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 441772009022 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 441772009023 TrkA-N domain; Region: TrkA_N; pfam02254 441772009024 TrkA-C domain; Region: TrkA_C; pfam02080 441772009025 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 441772009026 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 441772009027 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 441772009028 23S rRNA binding site [nucleotide binding]; other site 441772009029 L21 binding site [polypeptide binding]; other site 441772009030 L13 binding site [polypeptide binding]; other site 441772009031 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 441772009032 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 441772009033 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 441772009034 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 441772009035 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 441772009036 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 441772009037 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 441772009038 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 441772009039 active site 441772009040 dimer interface [polypeptide binding]; other site 441772009041 motif 1; other site 441772009042 motif 2; other site 441772009043 motif 3; other site 441772009044 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 441772009045 anticodon binding site; other site 441772009046 YtxC-like family; Region: YtxC; pfam08812 441772009047 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 441772009048 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 441772009049 Walker A/P-loop; other site 441772009050 ATP binding site [chemical binding]; other site 441772009051 Q-loop/lid; other site 441772009052 ABC transporter signature motif; other site 441772009053 Walker B; other site 441772009054 D-loop; other site 441772009055 H-loop/switch region; other site 441772009056 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 441772009057 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 441772009058 dimerization interface [polypeptide binding]; other site 441772009059 domain crossover interface; other site 441772009060 redox-dependent activation switch; other site 441772009061 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 441772009062 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 441772009063 S-adenosylmethionine binding site [chemical binding]; other site 441772009064 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 441772009065 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 441772009066 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 441772009067 Walker A/P-loop; other site 441772009068 ATP binding site [chemical binding]; other site 441772009069 Q-loop/lid; other site 441772009070 ABC transporter signature motif; other site 441772009071 Walker B; other site 441772009072 D-loop; other site 441772009073 H-loop/switch region; other site 441772009074 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 441772009075 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 441772009076 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 441772009077 Walker A/P-loop; other site 441772009078 ATP binding site [chemical binding]; other site 441772009079 Q-loop/lid; other site 441772009080 ABC transporter signature motif; other site 441772009081 Walker B; other site 441772009082 D-loop; other site 441772009083 H-loop/switch region; other site 441772009084 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 441772009085 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 441772009086 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 441772009087 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 441772009088 putative PBP binding loops; other site 441772009089 dimer interface [polypeptide binding]; other site 441772009090 ABC-ATPase subunit interface; other site 441772009091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 441772009092 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 441772009093 dimer interface [polypeptide binding]; other site 441772009094 conserved gate region; other site 441772009095 putative PBP binding loops; other site 441772009096 ABC-ATPase subunit interface; other site 441772009097 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 441772009098 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 441772009099 peptide binding site [polypeptide binding]; other site 441772009100 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 441772009101 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 441772009102 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 441772009103 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 441772009104 dimer interface [polypeptide binding]; other site 441772009105 active site 441772009106 catalytic residue [active] 441772009107 dihydrodipicolinate reductase; Provisional; Region: PRK00048 441772009108 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 441772009109 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 441772009110 aminotransferase A; Validated; Region: PRK07683 441772009111 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 441772009112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772009113 homodimer interface [polypeptide binding]; other site 441772009114 catalytic residue [active] 441772009115 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 441772009116 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 441772009117 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 441772009118 trimer interface [polypeptide binding]; other site 441772009119 active site 441772009120 substrate binding site [chemical binding]; other site 441772009121 CoA binding site [chemical binding]; other site 441772009122 single-stranded DNA-binding protein; Provisional; Region: PRK05813 441772009123 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 441772009124 dimer interface [polypeptide binding]; other site 441772009125 ssDNA binding site [nucleotide binding]; other site 441772009126 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772009127 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 441772009128 NodB motif; other site 441772009129 active site 441772009130 catalytic site [active] 441772009131 metal binding site [ion binding]; metal-binding site 441772009132 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 441772009133 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 441772009134 uncharacterized protein TIGR03905; Region: TIGR03905_4_Cys 441772009135 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 441772009136 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772009137 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772009138 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 441772009139 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 441772009140 active site 441772009141 HIGH motif; other site 441772009142 nucleotide binding site [chemical binding]; other site 441772009143 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 441772009144 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 441772009145 active site 441772009146 KMSKS motif; other site 441772009147 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 441772009148 tRNA binding surface [nucleotide binding]; other site 441772009149 anticodon binding site; other site 441772009150 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 441772009151 putative acetyltransferase YhhY; Provisional; Region: PRK10140 441772009152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772009153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 441772009154 Coenzyme A binding pocket [chemical binding]; other site 441772009155 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 441772009156 active site 441772009157 catalytic triad [active] 441772009158 peptide maturation system acyl carrier-related protein; Region: ocin_ACP_rel; TIGR04069 441772009159 peptide maturation system protein, TIGR04066 family; Region: nat_prod_clost 441772009160 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 441772009161 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 441772009162 FeS/SAM binding site; other site 441772009163 putative bacteriocin precursor, CLI_3235 family; Region: ocin_CLI_3235; TIGR04065 441772009164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 441772009165 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772009166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772009167 Walker A/P-loop; other site 441772009168 ATP binding site [chemical binding]; other site 441772009169 Q-loop/lid; other site 441772009170 ABC transporter signature motif; other site 441772009171 Walker B; other site 441772009172 D-loop; other site 441772009173 H-loop/switch region; other site 441772009174 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 441772009175 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 441772009176 Walker A/P-loop; other site 441772009177 ATP binding site [chemical binding]; other site 441772009178 Q-loop/lid; other site 441772009179 ABC transporter signature motif; other site 441772009180 Walker B; other site 441772009181 D-loop; other site 441772009182 H-loop/switch region; other site 441772009183 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772009184 FtsX-like permease family; Region: FtsX; pfam02687 441772009185 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 441772009186 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 441772009187 FtsX-like permease family; Region: FtsX; pfam02687 441772009188 NMT1/THI5 like; Region: NMT1; pfam09084 441772009189 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 441772009190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772009191 non-specific DNA binding site [nucleotide binding]; other site 441772009192 salt bridge; other site 441772009193 sequence-specific DNA binding site [nucleotide binding]; other site 441772009194 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 441772009195 sequence-specific DNA binding site [nucleotide binding]; other site 441772009196 salt bridge; other site 441772009197 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 441772009198 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 441772009199 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 441772009200 Walker A motif; other site 441772009201 ATP binding site [chemical binding]; other site 441772009202 Walker B motif; other site 441772009203 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 441772009204 non-specific DNA binding site [nucleotide binding]; other site 441772009205 salt bridge; other site 441772009206 sequence-specific DNA binding site [nucleotide binding]; other site 441772009207 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772009208 Resolvase, N terminal domain; Region: Resolvase; smart00857 441772009209 catalytic residues [active] 441772009210 catalytic nucleophile [active] 441772009211 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 441772009212 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 441772009213 substrate binding site [chemical binding]; other site 441772009214 amidase catalytic site [active] 441772009215 Zn binding residues [ion binding]; other site 441772009216 Bacterial SH3 domain; Region: SH3_3; cl17532 441772009217 Bacterial SH3 domain; Region: SH3_3; pfam08239 441772009218 Holin family; Region: Phage_holin_4; pfam05105 441772009219 Phage tail protein; Region: Sipho_tail; pfam05709 441772009220 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 441772009221 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 441772009222 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 441772009223 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 441772009224 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 441772009225 oligomerization interface [polypeptide binding]; other site 441772009226 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 441772009227 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 441772009228 Phage capsid family; Region: Phage_capsid; pfam05065 441772009229 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 441772009230 oligomer interface [polypeptide binding]; other site 441772009231 Clp protease; Region: CLP_protease; pfam00574 441772009232 active site residues [active] 441772009233 Phage portal protein; Region: Phage_portal; pfam04860 441772009234 Phage-related protein [Function unknown]; Region: COG4695; cl01923 441772009235 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 441772009236 Phage terminase, small subunit; Region: Terminase_4; pfam05119 441772009237 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 441772009238 Int/Topo IB signature motif; other site 441772009239 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 441772009240 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 441772009241 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 441772009242 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 441772009243 cofactor binding site; other site 441772009244 DNA binding site [nucleotide binding] 441772009245 substrate interaction site [chemical binding]; other site 441772009246 Methyltransferase domain; Region: Methyltransf_25; pfam13649 441772009247 Loader and inhibitor of phage G40P; Region: Inhibitor_G39P; pfam11417 441772009248 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 441772009249 KTSC domain; Region: KTSC; pfam13619 441772009250 ORF6N domain; Region: ORF6N; pfam10543 441772009251 ORF6C domain; Region: ORF6C; pfam10552 441772009252 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 441772009253 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772009254 non-specific DNA binding site [nucleotide binding]; other site 441772009255 salt bridge; other site 441772009256 sequence-specific DNA binding site [nucleotide binding]; other site 441772009257 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772009258 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 441772009259 non-specific DNA binding site [nucleotide binding]; other site 441772009260 salt bridge; other site 441772009261 sequence-specific DNA binding site [nucleotide binding]; other site 441772009262 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 441772009263 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 441772009264 catalytic residues [active] 441772009265 catalytic nucleophile [active] 441772009266 Presynaptic Site I dimer interface [polypeptide binding]; other site 441772009267 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 441772009268 Synaptic Flat tetramer interface [polypeptide binding]; other site 441772009269 Synaptic Site I dimer interface [polypeptide binding]; other site 441772009270 DNA binding site [nucleotide binding] 441772009271 Recombinase; Region: Recombinase; pfam07508 441772009272 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 441772009273 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 441772009274 NMT1-like family; Region: NMT1_2; pfam13379 441772009275 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772009276 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772009277 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772009278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 441772009279 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772009281 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 441772009282 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 441772009283 Walker A/P-loop; other site 441772009284 ATP binding site [chemical binding]; other site 441772009285 Q-loop/lid; other site 441772009286 ABC transporter signature motif; other site 441772009287 Walker B; other site 441772009288 D-loop; other site 441772009289 H-loop/switch region; other site 441772009290 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 441772009291 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 441772009292 dimer interface [polypeptide binding]; other site 441772009293 conserved gate region; other site 441772009294 putative PBP binding loops; other site 441772009295 ABC-ATPase subunit interface; other site 441772009296 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 441772009297 TPR repeat; Region: TPR_11; pfam13414 441772009298 binding surface 441772009299 TPR motif; other site 441772009300 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 441772009301 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 441772009302 recombination regulator RecX; Provisional; Region: recX; PRK14134 441772009303 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 441772009304 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772009305 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772009306 QueT transporter; Region: QueT; pfam06177 441772009307 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 441772009308 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 441772009309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 441772009310 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 441772009311 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 441772009312 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 441772009313 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 441772009314 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 441772009315 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 441772009316 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 441772009317 dimer interface [polypeptide binding]; other site 441772009318 active site 441772009319 glycine loop; other site 441772009320 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 441772009321 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772009322 sequence-specific DNA binding site [nucleotide binding]; other site 441772009323 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 441772009324 salt bridge; other site 441772009325 Cupin domain; Region: Cupin_2; pfam07883 441772009326 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 441772009327 Dimer interface [polypeptide binding]; other site 441772009328 BRCT sequence motif; other site 441772009329 agmatine deiminase; Region: agmatine_aguA; TIGR03380 441772009330 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 441772009331 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 441772009332 metal ion-dependent adhesion site (MIDAS); other site 441772009333 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 441772009334 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 441772009335 Walker A motif; other site 441772009336 ATP binding site [chemical binding]; other site 441772009337 Walker B motif; other site 441772009338 arginine finger; other site 441772009339 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 441772009340 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772009341 Uncharacterized conserved protein [Function unknown]; Region: COG1915 441772009342 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 441772009343 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 441772009344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772009345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 441772009346 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772009347 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772009348 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 441772009349 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 441772009350 Walker A motif; other site 441772009351 ATP binding site [chemical binding]; other site 441772009352 Walker B motif; other site 441772009353 arginine finger; other site 441772009354 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 441772009355 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772009356 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 441772009357 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772009358 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 441772009359 Ligand binding site [chemical binding]; other site 441772009360 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772009361 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772009362 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 441772009363 FAD binding site [chemical binding]; other site 441772009364 homotetramer interface [polypeptide binding]; other site 441772009365 substrate binding pocket [chemical binding]; other site 441772009366 catalytic base [active] 441772009367 putative acyltransferase; Provisional; Region: PRK05790 441772009368 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 441772009369 dimer interface [polypeptide binding]; other site 441772009370 active site 441772009371 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 441772009372 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 441772009373 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 441772009374 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 441772009375 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 441772009376 substrate binding site [chemical binding]; other site 441772009377 oxyanion hole (OAH) forming residues; other site 441772009378 trimer interface [polypeptide binding]; other site 441772009379 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 441772009380 GIY-YIG motif/motif A; other site 441772009381 active site 441772009382 catalytic site [active] 441772009383 putative DNA binding site [nucleotide binding]; other site 441772009384 metal binding site [ion binding]; metal-binding site 441772009385 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 441772009386 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 441772009387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009388 Zn2+ binding site [ion binding]; other site 441772009389 Mg2+ binding site [ion binding]; other site 441772009390 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 441772009391 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772009392 homotetramer interface [polypeptide binding]; other site 441772009393 active site 441772009394 metal binding site [ion binding]; metal-binding site 441772009395 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 441772009396 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 441772009397 active site 441772009398 catalytic site [active] 441772009399 metal binding site [ion binding]; metal-binding site 441772009400 dimer interface [polypeptide binding]; other site 441772009401 Cache domain; Region: Cache_1; pfam02743 441772009402 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772009403 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772009404 dimer interface [polypeptide binding]; other site 441772009405 putative CheW interface [polypeptide binding]; other site 441772009406 Rubredoxin [Energy production and conversion]; Region: COG1773 441772009407 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 441772009408 iron binding site [ion binding]; other site 441772009409 Rubrerythrin [Energy production and conversion]; Region: COG1592 441772009410 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 441772009411 diiron binding motif [ion binding]; other site 441772009412 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 441772009413 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 441772009414 FeS/SAM binding site; other site 441772009415 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 441772009416 Pyruvate formate lyase 1; Region: PFL1; cd01678 441772009417 coenzyme A binding site [chemical binding]; other site 441772009418 active site 441772009419 catalytic residues [active] 441772009420 glycine loop; other site 441772009421 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 441772009422 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 441772009423 5S rRNA interface [nucleotide binding]; other site 441772009424 CTC domain interface [polypeptide binding]; other site 441772009425 L16 interface [polypeptide binding]; other site 441772009426 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 441772009427 metal binding site 2 [ion binding]; metal-binding site 441772009428 putative DNA binding helix; other site 441772009429 metal binding site 1 [ion binding]; metal-binding site 441772009430 dimer interface [polypeptide binding]; other site 441772009431 structural Zn2+ binding site [ion binding]; other site 441772009432 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 441772009433 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 441772009434 Predicted transcriptional regulator [Transcription]; Region: COG2378 441772009435 HTH domain; Region: HTH_11; pfam08279 441772009436 WYL domain; Region: WYL; pfam13280 441772009437 CAAX protease self-immunity; Region: Abi; pfam02517 441772009438 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 441772009439 G1 box; other site 441772009440 GTP/Mg2+ binding site [chemical binding]; other site 441772009441 Switch I region; other site 441772009442 G2 box; other site 441772009443 G3 box; other site 441772009444 Switch II region; other site 441772009445 G4 box; other site 441772009446 G5 box; other site 441772009447 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 441772009448 Found in ATP-dependent protease La (LON); Region: LON; smart00464 441772009449 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 441772009450 Walker A motif; other site 441772009451 ATP binding site [chemical binding]; other site 441772009452 Walker B motif; other site 441772009453 arginine finger; other site 441772009454 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 441772009455 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 441772009456 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 441772009457 Walker A motif; other site 441772009458 ATP binding site [chemical binding]; other site 441772009459 Walker B motif; other site 441772009460 arginine finger; other site 441772009461 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 441772009462 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 441772009463 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 441772009464 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 441772009465 Walker A motif; other site 441772009466 ATP binding site [chemical binding]; other site 441772009467 Walker B motif; other site 441772009468 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 441772009469 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 441772009470 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 441772009471 oligomer interface [polypeptide binding]; other site 441772009472 active site residues [active] 441772009473 trigger factor; Provisional; Region: tig; PRK01490 441772009474 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 441772009475 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 441772009476 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 441772009477 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 441772009478 DNA interaction; other site 441772009479 Metal-binding active site; metal-binding site 441772009480 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772009481 active site 441772009482 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 441772009483 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 441772009484 heterodimer interface [polypeptide binding]; other site 441772009485 active site 441772009486 FMN binding site [chemical binding]; other site 441772009487 homodimer interface [polypeptide binding]; other site 441772009488 substrate binding site [chemical binding]; other site 441772009489 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 441772009490 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 441772009491 FAD binding pocket [chemical binding]; other site 441772009492 FAD binding motif [chemical binding]; other site 441772009493 phosphate binding motif [ion binding]; other site 441772009494 beta-alpha-beta structure motif; other site 441772009495 NAD binding pocket [chemical binding]; other site 441772009496 Iron coordination center [ion binding]; other site 441772009497 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...; Region: OMP_decarboxylase_like; cd04725 441772009498 active site 441772009499 dimer interface [polypeptide binding]; other site 441772009500 dihydroorotase; Validated; Region: pyrC; PRK09357 441772009501 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 441772009502 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 441772009503 active site 441772009504 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 441772009505 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 441772009506 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 441772009507 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 441772009508 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 441772009509 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 441772009510 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772009511 nucleotide binding site [chemical binding]; other site 441772009512 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 441772009513 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 441772009514 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009515 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009516 DsrE/DsrF-like family; Region: DrsE; cl00672 441772009517 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 441772009518 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 441772009519 Walker A/P-loop; other site 441772009520 ATP binding site [chemical binding]; other site 441772009521 Q-loop/lid; other site 441772009522 ABC transporter signature motif; other site 441772009523 Walker B; other site 441772009524 D-loop; other site 441772009525 H-loop/switch region; other site 441772009526 Alkylmercury lyase; Region: MerB; pfam03243 441772009527 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 441772009528 NMT1-like family; Region: NMT1_2; pfam13379 441772009529 Predicted permeases [General function prediction only]; Region: COG0701 441772009530 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 441772009531 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 441772009532 active site 441772009533 metal binding site [ion binding]; metal-binding site 441772009534 homotetramer interface [polypeptide binding]; other site 441772009535 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 441772009536 active site 441772009537 dimerization interface [polypeptide binding]; other site 441772009538 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 441772009539 peptide binding site [polypeptide binding]; other site 441772009540 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 441772009541 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 441772009542 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 441772009543 GatB domain; Region: GatB_Yqey; smart00845 441772009544 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 441772009545 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 441772009546 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 441772009547 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 441772009548 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 441772009549 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 441772009550 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 441772009551 nucleotide binding pocket [chemical binding]; other site 441772009552 K-X-D-G motif; other site 441772009553 catalytic site [active] 441772009554 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 441772009555 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 441772009556 Helix-hairpin-helix motif; Region: HHH; pfam00633 441772009557 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 441772009558 Dimer interface [polypeptide binding]; other site 441772009559 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 441772009560 Part of AAA domain; Region: AAA_19; pfam13245 441772009561 Family description; Region: UvrD_C_2; pfam13538 441772009562 Trp repressor protein; Region: Trp_repressor; cl17266 441772009563 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 441772009564 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 441772009565 RNA binding surface [nucleotide binding]; other site 441772009566 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 441772009567 active site 441772009568 uracil binding [chemical binding]; other site 441772009569 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 441772009570 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 441772009571 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...; Region: LT_GEWL; cd00254 441772009572 N-acetyl-D-glucosamine binding site [chemical binding]; other site 441772009573 catalytic residue [active] 441772009574 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 441772009575 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009576 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009577 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009578 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 441772009579 hypothetical protein; Validated; Region: PRK00124 441772009580 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 441772009581 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 441772009582 active site 441772009583 dimer interface [polypeptide binding]; other site 441772009584 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 441772009585 dimer interface [polypeptide binding]; other site 441772009586 active site 441772009587 Probable zinc-binding domain; Region: zf-trcl; pfam13451 441772009588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772009589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 441772009590 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 441772009591 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 441772009592 Coenzyme A binding pocket [chemical binding]; other site 441772009593 D-lactate dehydrogenase; Validated; Region: PRK08605 441772009594 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 441772009595 homodimer interface [polypeptide binding]; other site 441772009596 ligand binding site [chemical binding]; other site 441772009597 NAD binding site [chemical binding]; other site 441772009598 catalytic site [active] 441772009599 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 441772009600 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 441772009601 putative ligand binding site [chemical binding]; other site 441772009602 putative NAD binding site [chemical binding]; other site 441772009603 catalytic site [active] 441772009604 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772009605 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 441772009606 4Fe-4S binding domain; Region: Fer4; pfam00037 441772009607 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 441772009608 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 441772009609 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 441772009610 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 441772009611 Ligand binding site [chemical binding]; other site 441772009612 Electron transfer flavoprotein domain; Region: ETF; pfam01012 441772009613 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 441772009614 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 441772009615 active site 441772009616 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 441772009617 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009618 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 441772009619 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772009620 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 441772009621 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 441772009622 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 441772009623 CoA-transferase family III; Region: CoA_transf_3; pfam02515 441772009624 AMP-binding domain protein; Validated; Region: PRK08315 441772009625 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 441772009626 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 441772009627 acyl-activating enzyme (AAE) consensus motif; other site 441772009628 putative AMP binding site [chemical binding]; other site 441772009629 putative active site [active] 441772009630 putative CoA binding site [chemical binding]; other site 441772009631 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 441772009632 GMP synthase; Reviewed; Region: guaA; PRK00074 441772009633 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 441772009634 AMP/PPi binding site [chemical binding]; other site 441772009635 candidate oxyanion hole; other site 441772009636 catalytic triad [active] 441772009637 potential glutamine specificity residues [chemical binding]; other site 441772009638 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 441772009639 ATP Binding subdomain [chemical binding]; other site 441772009640 Ligand Binding sites [chemical binding]; other site 441772009641 Dimerization subdomain; other site 441772009642 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 441772009643 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; cl17186 441772009644 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...; Region: CBS_pair_IMPDH; cd04601 441772009645 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...; Region: IMPDH; cd00381 441772009646 active site 441772009647 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 441772009648 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 441772009649 Ligand Binding Site [chemical binding]; other site 441772009650 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 441772009651 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 441772009652 ring oligomerisation interface [polypeptide binding]; other site 441772009653 ATP/Mg binding site [chemical binding]; other site 441772009654 stacking interactions; other site 441772009655 hinge regions; other site 441772009656 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 441772009657 oligomerisation interface [polypeptide binding]; other site 441772009658 mobile loop; other site 441772009659 roof hairpin; other site 441772009660 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 441772009661 Uncharacterized conserved protein [Function unknown]; Region: COG0398 441772009662 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 441772009663 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 441772009664 4Fe-4S binding domain; Region: Fer4; pfam00037 441772009665 4Fe-4S binding domain; Region: Fer4; pfam00037 441772009666 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772009667 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 441772009668 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 441772009669 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 441772009670 minor groove reading motif; other site 441772009671 helix-hairpin-helix signature motif; other site 441772009672 substrate binding pocket [chemical binding]; other site 441772009673 active site 441772009674 putative oxidoreductase; Provisional; Region: PRK12831 441772009675 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 441772009676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772009677 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 441772009678 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 441772009679 FAD binding pocket [chemical binding]; other site 441772009680 FAD binding motif [chemical binding]; other site 441772009681 phosphate binding motif [ion binding]; other site 441772009682 beta-alpha-beta structure motif; other site 441772009683 NAD binding pocket [chemical binding]; other site 441772009684 Iron coordination center [ion binding]; other site 441772009685 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 441772009686 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 441772009687 CoA binding domain; Region: CoA_binding; pfam02629 441772009688 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 441772009689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772009690 Walker A/P-loop; other site 441772009691 ATP binding site [chemical binding]; other site 441772009692 Q-loop/lid; other site 441772009693 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772009694 ABC transporter; Region: ABC_tran_2; pfam12848 441772009695 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 441772009696 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 441772009697 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 441772009698 active site 441772009699 phosphorylation site [posttranslational modification] 441772009700 intermolecular recognition site; other site 441772009701 dimerization interface [polypeptide binding]; other site 441772009702 LytTr DNA-binding domain; Region: LytTR; pfam04397 441772009703 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 441772009704 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 441772009705 Histidine kinase; Region: His_kinase; pfam06580 441772009706 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 441772009707 ATP binding site [chemical binding]; other site 441772009708 Mg2+ binding site [ion binding]; other site 441772009709 G-X-G motif; other site 441772009710 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 441772009711 Carbon starvation protein CstA; Region: CstA; pfam02554 441772009712 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 441772009713 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 441772009714 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 441772009715 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 441772009716 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 441772009717 Peptidase M16C associated; Region: M16C_assoc; pfam08367 441772009718 pyruvate carboxylase; Reviewed; Region: PRK12999 441772009719 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772009720 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 441772009721 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 441772009722 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 441772009723 active site 441772009724 catalytic residues [active] 441772009725 metal binding site [ion binding]; metal-binding site 441772009726 homodimer binding site [polypeptide binding]; other site 441772009727 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 441772009728 carboxyltransferase (CT) interaction site; other site 441772009729 biotinylation site [posttranslational modification]; other site 441772009730 UGMP family protein; Validated; Region: PRK09604 441772009731 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 441772009732 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 441772009733 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 441772009734 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772009735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 441772009736 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 441772009737 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 441772009738 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 441772009739 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 441772009740 intersubunit interface [polypeptide binding]; other site 441772009741 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009742 Zn2+ binding site [ion binding]; other site 441772009743 Mg2+ binding site [ion binding]; other site 441772009744 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 441772009745 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772009746 Zn2+ binding site [ion binding]; other site 441772009747 Mg2+ binding site [ion binding]; other site 441772009748 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 441772009749 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 441772009750 Glycoprotease family; Region: Peptidase_M22; pfam00814 441772009751 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 441772009752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772009753 Coenzyme A binding pocket [chemical binding]; other site 441772009754 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 441772009755 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 441772009756 active site 441772009757 HIGH motif; other site 441772009758 dimer interface [polypeptide binding]; other site 441772009759 KMSKS motif; other site 441772009760 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 441772009761 RNA binding surface [nucleotide binding]; other site 441772009762 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 441772009763 Divergent AAA domain; Region: AAA_4; pfam04326 441772009764 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 441772009765 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 441772009766 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 441772009767 active site 441772009768 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 441772009769 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 441772009770 G1 box; other site 441772009771 putative GEF interaction site [polypeptide binding]; other site 441772009772 GTP/Mg2+ binding site [chemical binding]; other site 441772009773 Switch I region; other site 441772009774 G2 box; other site 441772009775 G3 box; other site 441772009776 Switch II region; other site 441772009777 G4 box; other site 441772009778 G5 box; other site 441772009779 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 441772009780 sugar phosphate phosphatase; Provisional; Region: PRK10513 441772009781 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 441772009782 active site 441772009783 motif I; other site 441772009784 motif II; other site 441772009785 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 441772009786 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 441772009787 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 441772009788 active site 441772009789 HIGH motif; other site 441772009790 dimer interface [polypeptide binding]; other site 441772009791 KMSKS motif; other site 441772009792 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 441772009793 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 441772009794 non-heme iron binding site [ion binding]; other site 441772009795 dimer interface [polypeptide binding]; other site 441772009796 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 441772009797 non-heme iron binding site [ion binding]; other site 441772009798 dimer interface [polypeptide binding]; other site 441772009799 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 441772009800 Putative glucoamylase; Region: Glycoamylase; pfam10091 441772009801 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 441772009802 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 441772009803 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 441772009804 diaminopimelate decarboxylase; Region: lysA; TIGR01048 441772009805 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 441772009806 active site 441772009807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772009808 substrate binding site [chemical binding]; other site 441772009809 catalytic residues [active] 441772009810 dimer interface [polypeptide binding]; other site 441772009811 aspartate kinase; Reviewed; Region: PRK06635 441772009812 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 441772009813 putative catalytic residues [active] 441772009814 putative nucleotide binding site [chemical binding]; other site 441772009815 putative aspartate binding site [chemical binding]; other site 441772009816 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 441772009817 putative allosteric regulatory site; other site 441772009818 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 441772009819 putative allosteric regulatory residue; other site 441772009820 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 441772009821 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 441772009822 active site 441772009823 metal binding site [ion binding]; metal-binding site 441772009824 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 441772009825 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 441772009826 hypothetical protein; Provisional; Region: PRK06851 441772009827 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; cl17189 441772009828 Walker A motif; other site 441772009829 ATP binding site [chemical binding]; other site 441772009830 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 441772009831 Part of AAA domain; Region: AAA_19; pfam13245 441772009832 FtsH Extracellular; Region: FtsH_ext; pfam06480 441772009833 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 441772009834 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 441772009835 Walker A motif; other site 441772009836 ATP binding site [chemical binding]; other site 441772009837 Walker B motif; other site 441772009838 arginine finger; other site 441772009839 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772009840 dipeptidase PepV; Reviewed; Region: PRK07318 441772009841 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 441772009842 active site 441772009843 metal binding site [ion binding]; metal-binding site 441772009844 prolyl-tRNA synthetase; Provisional; Region: PRK08661 441772009845 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...; Region: ProRS_core_arch_euk; cd00778 441772009846 dimer interface [polypeptide binding]; other site 441772009847 motif 1; other site 441772009848 active site 441772009849 motif 2; other site 441772009850 motif 3; other site 441772009851 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 441772009852 anticodon binding site; other site 441772009853 zinc-binding site [ion binding]; other site 441772009854 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 441772009855 GIY-YIG motif/motif A; other site 441772009856 putative active site [active] 441772009857 putative metal binding site [ion binding]; other site 441772009858 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772009859 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772009860 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772009861 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 441772009862 Walker A/P-loop; other site 441772009863 ATP binding site [chemical binding]; other site 441772009864 Q-loop/lid; other site 441772009865 ABC transporter signature motif; other site 441772009866 Walker B; other site 441772009867 D-loop; other site 441772009868 H-loop/switch region; other site 441772009869 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 441772009870 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772009871 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 441772009872 DNA binding residues [nucleotide binding] 441772009873 putative transporter; Provisional; Region: PRK11660 441772009874 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 441772009875 Sulfate transporter family; Region: Sulfate_transp; pfam00916 441772009876 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 441772009877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772009878 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 441772009879 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 441772009880 dimer interface [polypeptide binding]; other site 441772009881 phosphorylation site [posttranslational modification] 441772009882 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 441772009883 ATP binding site [chemical binding]; other site 441772009884 Mg2+ binding site [ion binding]; other site 441772009885 G-X-G motif; other site 441772009886 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772009887 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 441772009888 active site 441772009889 phosphorylation site [posttranslational modification] 441772009890 intermolecular recognition site; other site 441772009891 dimerization interface [polypeptide binding]; other site 441772009892 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 441772009893 DNA binding site [nucleotide binding] 441772009894 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 441772009895 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 441772009896 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 441772009897 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772009898 Walker A/P-loop; other site 441772009899 ATP binding site [chemical binding]; other site 441772009900 Q-loop/lid; other site 441772009901 ABC transporter signature motif; other site 441772009902 Walker B; other site 441772009903 D-loop; other site 441772009904 H-loop/switch region; other site 441772009905 Uncharacterized conserved protein [Function unknown]; Region: COG3589 441772009906 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 441772009907 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 441772009908 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 441772009909 methionine cluster; other site 441772009910 active site 441772009911 phosphorylation site [posttranslational modification] 441772009912 metal binding site [ion binding]; metal-binding site 441772009913 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 441772009914 active site 441772009915 P-loop; other site 441772009916 phosphorylation site [posttranslational modification] 441772009917 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 441772009918 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 441772009919 Walker A motif; other site 441772009920 ATP binding site [chemical binding]; other site 441772009921 Walker B motif; other site 441772009922 arginine finger; other site 441772009923 Transcriptional antiterminator [Transcription]; Region: COG3933 441772009924 PRD domain; Region: PRD; pfam00874 441772009925 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 441772009926 active pocket/dimerization site; other site 441772009927 active site 441772009928 phosphorylation site [posttranslational modification] 441772009929 PRD domain; Region: PRD; pfam00874 441772009930 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 441772009931 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 441772009932 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 441772009933 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 441772009934 NAD binding site [chemical binding]; other site 441772009935 sugar binding site [chemical binding]; other site 441772009936 divalent metal binding site [ion binding]; other site 441772009937 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772009938 dimer interface [polypeptide binding]; other site 441772009939 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 441772009940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 441772009941 metal binding site [ion binding]; metal-binding site 441772009942 active site 441772009943 I-site; other site 441772009944 Phage integrase family; Region: Phage_integrase; pfam00589 441772009945 active site 441772009946 DNA binding site [nucleotide binding] 441772009947 Int/Topo IB signature motif; other site 441772009948 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 441772009949 Protein of unknown function DUF43; Region: DUF43; pfam01861 441772009950 Mor transcription activator family; Region: Mor; cl02360 441772009951 Predicted transcriptional regulators [Transcription]; Region: COG1733 441772009952 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 441772009953 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 441772009954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772009955 NmrA-like family; Region: NmrA; pfam05368 441772009956 NAD(P) binding site [chemical binding]; other site 441772009957 active site 441772009958 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 441772009959 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 441772009960 active site 441772009961 catalytic tetrad [active] 441772009962 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772009963 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772009964 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 441772009965 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 441772009966 DNA binding residues [nucleotide binding] 441772009967 putative dimer interface [polypeptide binding]; other site 441772009968 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772009969 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772009970 Rrf2 family protein; Region: rrf2_super; TIGR00738 441772009971 Transcriptional regulator; Region: Rrf2; pfam02082 441772009972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 441772009973 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 441772009974 Coenzyme A binding pocket [chemical binding]; other site 441772009975 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 441772009976 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 441772009977 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 441772009978 S-adenosylmethionine binding site [chemical binding]; other site 441772009979 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 441772009980 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 441772009981 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 441772009982 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 441772009983 active site 441772009984 catalytic tetrad [active] 441772009985 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 441772009986 pyruvate kinase; Provisional; Region: PRK06354 441772009987 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; cl17342 441772009988 domain interfaces; other site 441772009989 active site 441772009990 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 441772009991 6-phosphofructokinase; Provisional; Region: PRK03202 441772009992 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 441772009993 active site 441772009994 ADP/pyrophosphate binding site [chemical binding]; other site 441772009995 dimerization interface [polypeptide binding]; other site 441772009996 allosteric effector site; other site 441772009997 fructose-1,6-bisphosphate binding site; other site 441772009998 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 441772009999 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 441772010000 active site 441772010001 PHP Thumb interface [polypeptide binding]; other site 441772010002 metal binding site [ion binding]; metal-binding site 441772010003 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 441772010004 generic binding surface II; other site 441772010005 generic binding surface I; other site 441772010006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 441772010007 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 441772010008 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 441772010009 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 441772010010 phosphate binding site [ion binding]; other site 441772010011 putative substrate binding pocket [chemical binding]; other site 441772010012 dimer interface [polypeptide binding]; other site 441772010013 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 441772010014 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 441772010015 FAD binding domain; Region: FAD_binding_4; pfam01565 441772010016 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 441772010017 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 441772010018 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 441772010019 active site 441772010020 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 441772010021 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 441772010022 GIY-YIG motif/motif A; other site 441772010023 active site 441772010024 catalytic site [active] 441772010025 putative DNA binding site [nucleotide binding]; other site 441772010026 metal binding site [ion binding]; metal-binding site 441772010027 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 441772010028 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 441772010029 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...; Region: YhaM_OBF_like; cd04492 441772010030 generic binding surface II; other site 441772010031 generic binding surface I; other site 441772010032 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 441772010033 Zn2+ binding site [ion binding]; other site 441772010034 Mg2+ binding site [ion binding]; other site 441772010035 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 441772010036 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 441772010037 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 441772010038 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 441772010039 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 441772010040 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 441772010041 phosphopeptide binding site; other site 441772010042 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 441772010043 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 441772010044 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 441772010045 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 441772010046 excinuclease ABC subunit B; Provisional; Region: PRK05298 441772010047 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 441772010048 ATP binding site [chemical binding]; other site 441772010049 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 441772010050 nucleotide binding region [chemical binding]; other site 441772010051 ATP-binding site [chemical binding]; other site 441772010052 Ultra-violet resistance protein B; Region: UvrB; pfam12344 441772010053 UvrB/uvrC motif; Region: UVR; pfam02151 441772010054 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 441772010055 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 441772010056 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 441772010057 C-terminal peptidase (prc); Region: prc; TIGR00225 441772010058 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 441772010059 protein binding site [polypeptide binding]; other site 441772010060 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 441772010061 Catalytic dyad [active] 441772010062 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 441772010063 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 441772010064 FtsX-like permease family; Region: FtsX; pfam02687 441772010065 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 441772010066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 441772010067 Walker A/P-loop; other site 441772010068 ATP binding site [chemical binding]; other site 441772010069 Q-loop/lid; other site 441772010070 ABC transporter signature motif; other site 441772010071 Walker B; other site 441772010072 D-loop; other site 441772010073 H-loop/switch region; other site 441772010074 Uncharacterized conserved protein [Function unknown]; Region: COG1284 441772010075 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 441772010076 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 441772010077 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 441772010078 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 441772010079 PYR/PP interface [polypeptide binding]; other site 441772010080 dimer interface [polypeptide binding]; other site 441772010081 TPP binding site [chemical binding]; other site 441772010082 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772010083 transketolase; Reviewed; Region: PRK05899 441772010084 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 441772010085 TPP-binding site [chemical binding]; other site 441772010086 dimer interface [polypeptide binding]; other site 441772010087 PemK-like protein; Region: PemK; pfam02452 441772010088 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 441772010089 alanine racemase; Reviewed; Region: alr; PRK00053 441772010090 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 441772010091 active site 441772010092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 441772010093 dimer interface [polypeptide binding]; other site 441772010094 substrate binding site [chemical binding]; other site 441772010095 catalytic residues [active] 441772010096 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 441772010097 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 441772010098 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 441772010099 putative substrate binding site [chemical binding]; other site 441772010100 putative ATP binding site [chemical binding]; other site 441772010101 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 441772010102 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 441772010103 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 441772010104 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 441772010105 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 441772010106 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 441772010107 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 441772010108 RNA binding surface [nucleotide binding]; other site 441772010109 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 441772010110 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 441772010111 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 441772010112 dinuclear metal binding motif [ion binding]; other site 441772010113 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 441772010114 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 441772010115 glutaminase active site [active] 441772010116 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 441772010117 dimer interface [polypeptide binding]; other site 441772010118 active site 441772010119 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 441772010120 dimer interface [polypeptide binding]; other site 441772010121 active site 441772010122 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 441772010123 active site 441772010124 intersubunit interactions; other site 441772010125 catalytic residue [active] 441772010126 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 441772010127 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 441772010128 motif II; other site 441772010129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 441772010130 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 441772010131 NAD(P) binding site [chemical binding]; other site 441772010132 active site 441772010133 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 441772010134 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 441772010135 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 441772010136 Nucleoside recognition; Region: Gate; pfam07670 441772010137 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 441772010138 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; pfam03608 441772010139 Glucitol operon activator protein (GutM); Region: GutM; pfam06923 441772010140 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 441772010141 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 441772010142 putative NAD(P) binding site [chemical binding]; other site 441772010143 catalytic Zn binding site [ion binding]; other site 441772010144 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 441772010145 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 441772010146 non-specific DNA interactions [nucleotide binding]; other site 441772010147 DNA binding site [nucleotide binding] 441772010148 sequence specific DNA binding site [nucleotide binding]; other site 441772010149 putative cAMP binding site [chemical binding]; other site 441772010150 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 441772010151 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 441772010152 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 441772010153 active site 441772010154 substrate binding site [chemical binding]; other site 441772010155 metal binding site [ion binding]; metal-binding site 441772010156 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 441772010157 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 441772010158 dimer interface [polypeptide binding]; other site 441772010159 PYR/PP interface [polypeptide binding]; other site 441772010160 TPP binding site [chemical binding]; other site 441772010161 substrate binding site [chemical binding]; other site 441772010162 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 441772010163 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 441772010164 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 441772010165 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 441772010166 P-loop; other site 441772010167 Magnesium ion binding site [ion binding]; other site 441772010168 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772010169 nucleotide binding site [chemical binding]; other site 441772010170 Acetokinase family; Region: Acetate_kinase; cl17229 441772010171 phosphate butyryltransferase; Validated; Region: PRK05805 441772010172 butyrate kinase; Provisional; Region: PRK03011 441772010173 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 441772010174 YbbR-like protein; Region: YbbR; pfam07949 441772010175 YbbR-like protein; Region: YbbR; pfam07949 441772010176 Uncharacterized conserved protein [Function unknown]; Region: COG1624 441772010177 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 441772010178 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 441772010179 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 441772010180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 441772010181 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 441772010182 catalytic residues [active] 441772010183 isoaspartyl dipeptidase; Provisional; Region: PRK10657 441772010184 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 441772010185 active site 441772010186 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 441772010187 TPR motif; other site 441772010188 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772010189 binding surface 441772010190 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 441772010191 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 441772010192 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 441772010193 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 441772010194 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 441772010195 dimerization domain swap beta strand [polypeptide binding]; other site 441772010196 regulatory protein interface [polypeptide binding]; other site 441772010197 active site 441772010198 regulatory phosphorylation site [posttranslational modification]; other site 441772010199 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 441772010200 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 441772010201 putative active site [active] 441772010202 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 441772010203 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 441772010204 Walker A motif; other site 441772010205 ATP binding site [chemical binding]; other site 441772010206 Walker B motif; other site 441772010207 arginine finger; other site 441772010208 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 441772010209 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 441772010210 binding surface 441772010211 TPR motif; other site 441772010212 Tetratricopeptide repeat; Region: TPR_12; pfam13424 441772010213 fumarate hydratase; Provisional; Region: PRK06842 441772010214 fumarate hydratase; Provisional; Region: PRK06246 441772010215 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 441772010216 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 441772010217 active site 441772010218 metal binding site [ion binding]; metal-binding site 441772010219 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 441772010220 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 441772010221 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 441772010222 PhoU domain; Region: PhoU; pfam01895 441772010223 PhoU domain; Region: PhoU; pfam01895 441772010224 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 441772010225 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 441772010226 23S rRNA interface [nucleotide binding]; other site 441772010227 L3 interface [polypeptide binding]; other site 441772010228 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 441772010229 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 441772010230 dimerization interface 3.5A [polypeptide binding]; other site 441772010231 active site 441772010232 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 441772010233 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 441772010234 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 441772010235 Walker A/P-loop; other site 441772010236 ATP binding site [chemical binding]; other site 441772010237 Q-loop/lid; other site 441772010238 ABC transporter signature motif; other site 441772010239 Walker B; other site 441772010240 D-loop; other site 441772010241 H-loop/switch region; other site 441772010242 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 441772010243 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 441772010244 Walker A/P-loop; other site 441772010245 ATP binding site [chemical binding]; other site 441772010246 Q-loop/lid; other site 441772010247 ABC transporter signature motif; other site 441772010248 Walker B; other site 441772010249 D-loop; other site 441772010250 H-loop/switch region; other site 441772010251 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 441772010252 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 441772010253 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 441772010254 alphaNTD homodimer interface [polypeptide binding]; other site 441772010255 alphaNTD - beta interaction site [polypeptide binding]; other site 441772010256 alphaNTD - beta' interaction site [polypeptide binding]; other site 441772010257 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 441772010258 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 441772010259 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 441772010260 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 441772010261 RNA binding surface [nucleotide binding]; other site 441772010262 30S ribosomal protein S11; Validated; Region: PRK05309 441772010263 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 441772010264 30S ribosomal protein S13; Region: bact_S13; TIGR03631 441772010265 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 441772010266 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 441772010267 rRNA binding site [nucleotide binding]; other site 441772010268 predicted 30S ribosome binding site; other site 441772010269 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 441772010270 RNA binding site [nucleotide binding]; other site 441772010271 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 441772010272 active site 441772010273 adenylate kinase; Reviewed; Region: adk; PRK00279 441772010274 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 441772010275 AMP-binding site [chemical binding]; other site 441772010276 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 441772010277 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 441772010278 SecY translocase; Region: SecY; pfam00344 441772010279 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 441772010280 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 441772010281 23S rRNA binding site [nucleotide binding]; other site 441772010282 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 441772010283 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 441772010284 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 441772010285 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 441772010286 5S rRNA interface [nucleotide binding]; other site 441772010287 L27 interface [polypeptide binding]; other site 441772010288 23S rRNA interface [nucleotide binding]; other site 441772010289 L5 interface [polypeptide binding]; other site 441772010290 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 441772010291 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 441772010292 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 441772010293 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 441772010294 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 441772010295 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 441772010296 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 441772010297 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 441772010298 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 441772010299 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 441772010300 RNA binding site [nucleotide binding]; other site 441772010301 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 441772010302 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 441772010303 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 441772010304 23S rRNA interface [nucleotide binding]; other site 441772010305 putative translocon interaction site; other site 441772010306 signal recognition particle (SRP54) interaction site; other site 441772010307 L23 interface [polypeptide binding]; other site 441772010308 trigger factor interaction site; other site 441772010309 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 441772010310 23S rRNA interface [nucleotide binding]; other site 441772010311 5S rRNA interface [nucleotide binding]; other site 441772010312 putative antibiotic binding site [chemical binding]; other site 441772010313 L25 interface [polypeptide binding]; other site 441772010314 L27 interface [polypeptide binding]; other site 441772010315 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 441772010316 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 441772010317 G-X-X-G motif; other site 441772010318 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 441772010319 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 441772010320 putative translocon binding site; other site 441772010321 protein-rRNA interface [nucleotide binding]; other site 441772010322 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 441772010323 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 441772010324 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 441772010325 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 441772010326 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 441772010327 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 441772010328 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 441772010329 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 441772010330 elongation factor Tu; Reviewed; Region: PRK00049 441772010331 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 441772010332 G1 box; other site 441772010333 GEF interaction site [polypeptide binding]; other site 441772010334 GTP/Mg2+ binding site [chemical binding]; other site 441772010335 Switch I region; other site 441772010336 G2 box; other site 441772010337 G3 box; other site 441772010338 Switch II region; other site 441772010339 G4 box; other site 441772010340 G5 box; other site 441772010341 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 441772010342 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 441772010343 Antibiotic Binding Site [chemical binding]; other site 441772010344 elongation factor G; Reviewed; Region: PRK00007 441772010345 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 441772010346 G1 box; other site 441772010347 putative GEF interaction site [polypeptide binding]; other site 441772010348 GTP/Mg2+ binding site [chemical binding]; other site 441772010349 Switch I region; other site 441772010350 G2 box; other site 441772010351 G3 box; other site 441772010352 Switch II region; other site 441772010353 G4 box; other site 441772010354 G5 box; other site 441772010355 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 441772010356 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 441772010357 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 441772010358 30S ribosomal protein S7; Validated; Region: PRK05302 441772010359 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 441772010360 S17 interaction site [polypeptide binding]; other site 441772010361 S8 interaction site; other site 441772010362 16S rRNA interaction site [nucleotide binding]; other site 441772010363 streptomycin interaction site [chemical binding]; other site 441772010364 23S rRNA interaction site [nucleotide binding]; other site 441772010365 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 441772010366 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 441772010367 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 441772010368 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 441772010369 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 441772010370 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 441772010371 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 441772010372 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 441772010373 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 441772010374 G-loop; other site 441772010375 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 441772010376 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 441772010377 DNA binding site [nucleotide binding] 441772010378 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 441772010379 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 441772010380 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; cl17585 441772010381 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 441772010382 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 441772010383 RPB1 interaction site [polypeptide binding]; other site 441772010384 RPB10 interaction site [polypeptide binding]; other site 441772010385 RPB11 interaction site [polypeptide binding]; other site 441772010386 RPB3 interaction site [polypeptide binding]; other site 441772010387 RPB12 interaction site [polypeptide binding]; other site 441772010388 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 441772010389 core dimer interface [polypeptide binding]; other site 441772010390 peripheral dimer interface [polypeptide binding]; other site 441772010391 L10 interface [polypeptide binding]; other site 441772010392 L11 interface [polypeptide binding]; other site 441772010393 putative EF-Tu interaction site [polypeptide binding]; other site 441772010394 putative EF-G interaction site [polypeptide binding]; other site 441772010395 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 441772010396 23S rRNA interface [nucleotide binding]; other site 441772010397 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 441772010398 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 441772010399 mRNA/rRNA interface [nucleotide binding]; other site 441772010400 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 441772010401 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 441772010402 23S rRNA interface [nucleotide binding]; other site 441772010403 L7/L12 interface [polypeptide binding]; other site 441772010404 putative thiostrepton binding site; other site 441772010405 L25 interface [polypeptide binding]; other site 441772010406 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 441772010407 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 441772010408 putative homodimer interface [polypeptide binding]; other site 441772010409 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 441772010410 heterodimer interface [polypeptide binding]; other site 441772010411 homodimer interface [polypeptide binding]; other site 441772010412 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 441772010413 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 441772010414 elongation factor Tu; Reviewed; Region: PRK00049 441772010415 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 441772010416 G1 box; other site 441772010417 GEF interaction site [polypeptide binding]; other site 441772010418 GTP/Mg2+ binding site [chemical binding]; other site 441772010419 Switch I region; other site 441772010420 G2 box; other site 441772010421 G3 box; other site 441772010422 Switch II region; other site 441772010423 G4 box; other site 441772010424 G5 box; other site 441772010425 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 441772010426 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 441772010427 Antibiotic Binding Site [chemical binding]; other site 441772010428 RNA polymerase factor sigma-70; Validated; Region: PRK08295 441772010429 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772010430 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 441772010431 YacP-like NYN domain; Region: NYN_YacP; pfam05991 441772010432 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 441772010433 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 441772010434 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 441772010435 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 441772010436 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 441772010437 dimerization interface [polypeptide binding]; other site 441772010438 active site 441772010439 metal binding site [ion binding]; metal-binding site 441772010440 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 441772010441 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 441772010442 active site 441772010443 HIGH motif; other site 441772010444 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 441772010445 KMSKS motif; other site 441772010446 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 441772010447 tRNA binding surface [nucleotide binding]; other site 441772010448 anticodon binding site; other site 441772010449 threonine dehydratase; Provisional; Region: PRK08198 441772010450 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 441772010451 tetramer interface [polypeptide binding]; other site 441772010452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 441772010453 catalytic residue [active] 441772010454 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 441772010455 prolyl-tRNA synthetase; Provisional; Region: PRK09194 441772010456 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...; Region: class_II_aaRS-like_core; cl00268 441772010457 motif 1; other site 441772010458 dimer interface [polypeptide binding]; other site 441772010459 active site 441772010460 motif 2; other site 441772010461 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 441772010462 putative deacylase active site [active] 441772010463 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 441772010464 anticodon binding site; other site 441772010465 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 441772010466 substrate binding site; other site 441772010467 dimer interface; other site 441772010468 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 441772010469 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 441772010470 putative active site [active] 441772010471 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 441772010472 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 441772010473 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 441772010474 DNA repair protein RadA; Provisional; Region: PRK11823 441772010475 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 441772010476 Walker A motif/ATP binding site; other site 441772010477 ATP binding site [chemical binding]; other site 441772010478 Walker B motif; other site 441772010479 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 441772010480 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 441772010481 Clp amino terminal domain; Region: Clp_N; pfam02861 441772010482 Clp amino terminal domain; Region: Clp_N; pfam02861 441772010483 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 441772010484 Walker A motif; other site 441772010485 ATP binding site [chemical binding]; other site 441772010486 Walker B motif; other site 441772010487 arginine finger; other site 441772010488 UvrB/uvrC motif; Region: UVR; pfam02151 441772010489 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 441772010490 Walker A motif; other site 441772010491 ATP binding site [chemical binding]; other site 441772010492 Walker B motif; other site 441772010493 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 441772010494 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 441772010495 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 441772010496 ADP binding site [chemical binding]; other site 441772010497 phosphagen binding site; other site 441772010498 substrate specificity loop; other site 441772010499 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 441772010500 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 441772010501 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 441772010502 elongation factor G; Reviewed; Region: PRK12740 441772010503 G1 box; other site 441772010504 putative GEF interaction site [polypeptide binding]; other site 441772010505 GTP/Mg2+ binding site [chemical binding]; other site 441772010506 Switch I region; other site 441772010507 G2 box; other site 441772010508 G3 box; other site 441772010509 Switch II region; other site 441772010510 G4 box; other site 441772010511 G5 box; other site 441772010512 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 441772010513 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 441772010514 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 441772010515 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 441772010516 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 441772010517 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772010518 Quinolinate phosphoribosyl transferase, C-terminal domain; Region: QRPTase_C; pfam01729 441772010519 glycyl-tRNA synthetase; Provisional; Region: PRK04173 441772010520 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...; Region: class_II_aaRS-like_core; cl00268 441772010521 motif 1; other site 441772010522 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 441772010523 active site 441772010524 motif 2; other site 441772010525 motif 3; other site 441772010526 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 441772010527 anticodon binding site; other site 441772010528 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 441772010529 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 441772010530 dimer interface [polypeptide binding]; other site 441772010531 putative anticodon binding site; other site 441772010532 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 441772010533 motif 1; other site 441772010534 active site 441772010535 motif 2; other site 441772010536 motif 3; other site 441772010537 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 441772010538 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 441772010539 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 441772010540 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 441772010541 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 441772010542 FMN binding site [chemical binding]; other site 441772010543 active site 441772010544 catalytic residues [active] 441772010545 substrate binding site [chemical binding]; other site 441772010546 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 441772010547 nucleotide binding site [chemical binding]; other site 441772010548 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 441772010549 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 441772010550 Potassium binding sites [ion binding]; other site 441772010551 Cesium cation binding sites [ion binding]; other site 441772010552 FtsH Extracellular; Region: FtsH_ext; pfam06480 441772010553 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 441772010554 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 441772010555 Walker A motif; other site 441772010556 ATP binding site [chemical binding]; other site 441772010557 Walker B motif; other site 441772010558 arginine finger; other site 441772010559 Peptidase family M41; Region: Peptidase_M41; pfam01434 441772010560 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010561 active site 441772010562 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 441772010563 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 441772010564 Ligand Binding Site [chemical binding]; other site 441772010565 TilS substrate C-terminal domain; Region: TilS_C; smart00977 441772010566 stage II sporulation protein E; Region: spore_II_E; TIGR02865 441772010567 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 441772010568 hypothetical protein; Provisional; Region: PRK05807 441772010569 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 441772010570 RNA binding site [nucleotide binding]; other site 441772010571 Septum formation initiator; Region: DivIC; pfam04977 441772010572 spore cortex biosynthesis protein YabQ; Region: spore_yabQ; TIGR02893 441772010573 sporulation protein YabP; Region: spore_yabP; TIGR02892 441772010574 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 441772010575 RNA binding surface [nucleotide binding]; other site 441772010576 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 441772010577 IHF dimer interface [polypeptide binding]; other site 441772010578 IHF - DNA interface [nucleotide binding]; other site 441772010579 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 441772010580 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 441772010581 putative SAM binding site [chemical binding]; other site 441772010582 putative homodimer interface [polypeptide binding]; other site 441772010583 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 441772010584 homodimer interface [polypeptide binding]; other site 441772010585 metal binding site [ion binding]; metal-binding site 441772010586 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 441772010587 homodimer interface [polypeptide binding]; other site 441772010588 active site 441772010589 putative chemical substrate binding site [chemical binding]; other site 441772010590 metal binding site [ion binding]; metal-binding site 441772010591 stage V sporulation protein B; Region: spore_V_B; TIGR02900 441772010592 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 441772010593 stage V sporulation protein T; Region: spore_V_T; TIGR02851 441772010594 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 441772010595 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 441772010596 SurA N-terminal domain; Region: SurA_N_3; cl07813 441772010597 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 441772010598 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 441772010599 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 441772010600 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 441772010601 ATP binding site [chemical binding]; other site 441772010602 putative Mg++ binding site [ion binding]; other site 441772010603 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 441772010604 nucleotide binding region [chemical binding]; other site 441772010605 ATP-binding site [chemical binding]; other site 441772010606 TRCF domain; Region: TRCF; pfam03461 441772010607 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 441772010608 putative active site [active] 441772010609 catalytic residue [active] 441772010610 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 441772010611 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 441772010612 protein binding site [polypeptide binding]; other site 441772010613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 441772010614 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 441772010615 dimerization interface [polypeptide binding]; other site 441772010616 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 441772010617 dimer interface [polypeptide binding]; other site 441772010618 phosphorylation site [posttranslational modification] 441772010619 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 441772010620 ATP binding site [chemical binding]; other site 441772010621 Mg2+ binding site [ion binding]; other site 441772010622 G-X-G motif; other site 441772010623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 441772010624 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 441772010625 active site 441772010626 phosphorylation site [posttranslational modification] 441772010627 intermolecular recognition site; other site 441772010628 dimerization interface [polypeptide binding]; other site 441772010629 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 441772010630 DNA binding site [nucleotide binding] 441772010631 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 441772010632 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 441772010633 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010634 active site 441772010635 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 441772010636 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 441772010637 Substrate binding site; other site 441772010638 Mg++ binding site; other site 441772010639 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 441772010640 active site 441772010641 substrate binding site [chemical binding]; other site 441772010642 CoA binding site [chemical binding]; other site 441772010643 regulatory protein SpoVG; Reviewed; Region: PRK13259 441772010644 pur operon repressor; Provisional; Region: PRK09213 441772010645 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 441772010646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 441772010647 active site 441772010648 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 441772010649 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 441772010650 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 441772010651 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 441772010652 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 441772010653 4Fe-4S binding domain; Region: Fer4; pfam00037 441772010654 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 441772010655 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 441772010656 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 441772010657 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 441772010658 motif II; other site 441772010659 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 441772010660 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 441772010661 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 441772010662 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 441772010663 FeS/SAM binding site; other site 441772010664 Uncharacterized membrane protein [Function unknown]; Region: COG3949 441772010665 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 441772010666 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 441772010667 FeS/SAM binding site; other site 441772010668 Heme NO binding; Region: HNOB; pfam07700 441772010669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 441772010670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 441772010671 dimer interface [polypeptide binding]; other site 441772010672 putative CheW interface [polypeptide binding]; other site 441772010673 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 441772010674 non-specific DNA binding site [nucleotide binding]; other site 441772010675 salt bridge; other site 441772010676 sequence-specific DNA binding site [nucleotide binding]; other site 441772010677 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 441772010678 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 441772010679 active site 441772010680 glutamate racemase; Provisional; Region: PRK00865 441772010681 glutamine synthetase, type I; Region: GlnA; TIGR00653 441772010682 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 441772010683 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 441772010684 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 441772010685 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 441772010686 hinge; other site 441772010687 active site 441772010688 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 441772010689 Sporulation and spore germination; Region: Germane; pfam10646 441772010690 hypothetical protein; Provisional; Region: PRK05590 441772010691 SEC-C motif; Region: SEC-C; pfam02810 441772010692 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 441772010693 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 441772010694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 441772010695 putative substrate translocation pore; other site 441772010696 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 441772010697 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 441772010698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 441772010699 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 441772010700 DNA-binding interface [nucleotide binding]; DNA binding site 441772010701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772010702 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 441772010703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 441772010704 methionine aminopeptidase; Provisional; Region: PRK12318 441772010705 SEC-C motif; Region: SEC-C; pfam02810 441772010706 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 441772010707 active site 441772010708 Nitroreductase-like family 3. 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_3; cd02139 441772010709 putative FMN binding site [chemical binding]; other site 441772010710 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 441772010711 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 441772010712 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 441772010713 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 441772010714 Pyruvate formate lyase; Region: PFL; pfam02901 441772010715 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 441772010716 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 441772010717 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 441772010718 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 441772010719 FeS/SAM binding site; other site 441772010720 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 441772010721 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; cl15377 441772010722 FeS/SAM binding site; other site 441772010723 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 441772010724 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 441772010725 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 441772010726 G1 box; other site 441772010727 GTP/Mg2+ binding site [chemical binding]; other site 441772010728 Switch I region; other site 441772010729 G2 box; other site 441772010730 Switch II region; other site 441772010731 G3 box; other site 441772010732 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 441772010733 Na binding site [ion binding]; other site 441772010734 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 441772010735 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 441772010736 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 441772010737 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 441772010738 active site 441772010739 PHP-associated; Region: PHP_C; pfam13263 441772010740 dUTPase; Region: dUTPase_2; pfam08761 441772010741 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 441772010742 active site 441772010743 homodimer interface [polypeptide binding]; other site 441772010744 metal binding site [ion binding]; metal-binding site 441772010745 Protein of unknown function, DUF606; Region: DUF606; pfam04657 441772010746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 441772010747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772010748 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 441772010749 dimerization interface [polypeptide binding]; other site 441772010750 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 441772010751 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 441772010752 active site 441772010753 catalytic residues [active] 441772010754 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 441772010755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 441772010756 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 441772010757 putative dimerization interface [polypeptide binding]; other site 441772010758 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 441772010759 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 441772010760 putative ligand binding site [chemical binding]; other site 441772010761 NAD binding site [chemical binding]; other site 441772010762 catalytic site [active] 441772010763 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 441772010764 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 441772010765 Elongation factor 1 gamma, conserved domain; Region: EF1G; pfam00647 441772010766 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 441772010767 biotin carboxylase; Validated; Region: PRK05586 441772010768 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 441772010769 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 441772010770 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 441772010771 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 441772010772 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 441772010773 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 441772010774 carboxyltransferase (CT) interaction site; other site 441772010775 biotinylation site [posttranslational modification]; other site 441772010776 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 441772010777 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 441772010778 dimer interface [polypeptide binding]; other site 441772010779 active site 441772010780 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 441772010781 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 441772010782 NAD(P) binding site [chemical binding]; other site 441772010783 homotetramer interface [polypeptide binding]; other site 441772010784 homodimer interface [polypeptide binding]; other site 441772010785 active site 441772010786 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 441772010787 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 441772010788 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 441772010789 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 441772010790 FMN binding site [chemical binding]; other site 441772010791 substrate binding site [chemical binding]; other site 441772010792 putative catalytic residue [active] 441772010793 acyl carrier protein; Provisional; Region: acpP; PRK00982 441772010794 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 441772010795 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 441772010796 dimer interface [polypeptide binding]; other site 441772010797 active site 441772010798 CoA binding pocket [chemical binding]; other site 441772010799 MarR family; Region: MarR_2; pfam12802 441772010800 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 441772010801 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 441772010802 FMN binding site [chemical binding]; other site 441772010803 substrate binding site [chemical binding]; other site 441772010804 putative catalytic residue [active] 441772010805 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 441772010806 Peptidase family M23; Region: Peptidase_M23; pfam01551 441772010807 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 441772010808 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 441772010809 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 441772010810 DNA replication protein DnaC; Validated; Region: PRK06835 441772010811 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 441772010812 Walker A motif; other site 441772010813 ATP binding site [chemical binding]; other site 441772010814 PEP synthetase regulatory protein; Provisional; Region: PRK05339 441772010815 CoA binding domain; Region: CoA_binding_2; pfam13380 441772010816 flavoprotein, HI0933 family; Region: TIGR00275 441772010817 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 441772010818 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 441772010819 active site 441772010820 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 441772010821 active site 441772010822 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 441772010823 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 441772010824 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 441772010825 GDP-binding site [chemical binding]; other site 441772010826 ACT binding site; other site 441772010827 IMP binding site; other site 441772010828 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 441772010829 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 441772010830 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 441772010831 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 441772010832 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 441772010833 active site 441772010834 substrate binding site [chemical binding]; other site 441772010835 metal binding site [ion binding]; metal-binding site 441772010836 replicative DNA helicase; Provisional; Region: PRK05595 441772010837 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 441772010838 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 441772010839 Walker A motif; other site 441772010840 ATP binding site [chemical binding]; other site 441772010841 Walker B motif; other site 441772010842 DNA binding loops [nucleotide binding] 441772010843 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 441772010844 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 441772010845 Walker A motif; other site 441772010846 ATP binding site [chemical binding]; other site 441772010847 Walker B motif; other site 441772010848 arginine finger; other site 441772010849 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 441772010850 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 441772010851 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 441772010852 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 441772010853 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 441772010854 DHH family; Region: DHH; pfam01368 441772010855 DHHA1 domain; Region: DHHA1; pfam02272 441772010856 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 441772010857 MazG-like family; Region: MazG-like; pfam12643 441772010858 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 441772010859 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 441772010860 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 441772010861 dimer interface [polypeptide binding]; other site 441772010862 ssDNA binding site [nucleotide binding]; other site 441772010863 tetramer (dimer of dimers) interface [polypeptide binding]; other site 441772010864 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 441772010865 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 441772010866 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 441772010867 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 441772010868 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 441772010869 Mechanosensitive ion channel; Region: MS_channel; pfam00924 441772010870 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 441772010871 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 441772010872 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 441772010873 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 441772010874 catalytic residue [active] 441772010875 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 441772010876 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 441772010877 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 441772010878 ParB-like nuclease domain; Region: ParB; smart00470 441772010879 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 441772010880 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 441772010881 P-loop; other site 441772010882 Magnesium ion binding site [ion binding]; other site 441772010883 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 441772010884 Magnesium ion binding site [ion binding]; other site 441772010885 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 441772010886 ParB-like nuclease domain; Region: ParBc; pfam02195 441772010887 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 441772010888 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 441772010889 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 441772010890 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 441772010891 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 441772010892 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 441772010893 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 441772010894 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 441772010895 trmE is a tRNA modification GTPase; Region: trmE; cd04164 441772010896 G1 box; other site 441772010897 GTP/Mg2+ binding site [chemical binding]; other site 441772010898 Switch I region; other site 441772010899 G2 box; other site 441772010900 Switch II region; other site 441772010901 G3 box; other site 441772010902 G4 box; other site 441772010903 G5 box; other site 441772010904 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 441772010905 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 441772010906 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 441772010907 G-X-X-G motif; other site 441772010908 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 441772010909 RxxxH motif; other site 441772010910 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 441772010911 Haemolytic domain; Region: Haemolytic; pfam01809 441772010912 ribonuclease P; Reviewed; Region: rnpA; PRK00499 441772010913 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 441772010914 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 441772010915 putative active site [active] 441772010916 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 441772010917 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 441772010918 non-specific DNA binding site [nucleotide binding]; other site 441772010919 salt bridge; other site 441772010920 sequence-specific DNA binding site [nucleotide binding]; other site 441772010921 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 441772010922 active site 441772010923 DNA binding site [nucleotide binding] 441772010924 Int/Topo IB signature motif; other site 441772010925 CAAX protease self-immunity; Region: Abi; pfam02517 441772010926 Initiator Replication protein; Region: Rep_3; pfam01051 441772010927 Protein involved in initiation of plasmid replication [DNA replication, recombination, and repair]; Region: COG5527 441772010928 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 441772010929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 441772010930 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 441772010931 catalytic core [active] 441772010932 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 441772010933 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 441772010934 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 441772010935 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 441772010936 tyrosine aminotransferase; Provisional; Region: PTZ00433 441772010937 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 441772010938 HlyD family secretion protein; Region: HlyD_3; pfam13437 441772010939 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 441772010940 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...; Region: Peptidase_C39B; cd02418 441772010941 putative active site [active] 441772010942 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 441772010943 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 441772010944 Walker A/P-loop; other site 441772010945 ATP binding site [chemical binding]; other site 441772010946 Q-loop/lid; other site 441772010947 ABC transporter signature motif; other site 441772010948 Walker B; other site 441772010949 D-loop; other site 441772010950 H-loop/switch region; other site