-- dump date 20140619_134809 -- class Genbank::misc_feature -- table misc_feature_note -- id note 458233000001 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 458233000002 active site 458233000003 DNA binding site [nucleotide binding] 458233000004 Int/Topo IB signature motif; other site 458233000005 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000006 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000007 Coenzyme A binding pocket [chemical binding]; other site 458233000008 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233000009 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 458233000010 Radical SAM superfamily; Region: Radical_SAM; pfam04055 458233000011 FeS/SAM binding site; other site 458233000012 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 458233000013 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 458233000014 FeS/SAM binding site; other site 458233000015 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 458233000016 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 458233000017 ATP binding site [chemical binding]; other site 458233000018 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233000019 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 458233000020 non-specific DNA binding site [nucleotide binding]; other site 458233000021 salt bridge; other site 458233000022 sequence-specific DNA binding site [nucleotide binding]; other site 458233000023 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458233000024 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233000025 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 458233000026 P-loop; other site 458233000027 Magnesium ion binding site [ion binding]; other site 458233000028 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 458233000029 Magnesium ion binding site [ion binding]; other site 458233000030 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 458233000031 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 458233000032 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 458233000033 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 458233000034 Domain of unknown function DUF87; Region: DUF87; pfam01935 458233000035 AAA-like domain; Region: AAA_10; pfam12846 458233000036 Zonular occludens toxin (Zot); Region: Zot; cl17485 458233000037 Lysozyme-like; Region: Lysozyme_like; pfam13702 458233000038 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458233000039 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233000040 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 458233000041 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233000042 DNA topoisomerase III; Provisional; Region: PRK07726 458233000043 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 458233000044 active site 458233000045 putative interdomain interaction site [polypeptide binding]; other site 458233000046 putative metal-binding site [ion binding]; other site 458233000047 putative nucleotide binding site [chemical binding]; other site 458233000048 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 458233000049 domain I; other site 458233000050 DNA binding groove [nucleotide binding] 458233000051 phosphate binding site [ion binding]; other site 458233000052 domain II; other site 458233000053 domain III; other site 458233000054 nucleotide binding site [chemical binding]; other site 458233000055 catalytic site [active] 458233000056 domain IV; other site 458233000057 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 458233000058 CAAX protease self-immunity; Region: Abi; pfam02517 458233000059 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 458233000060 Toprim-like; Region: Toprim_2; pfam13155 458233000061 Restriction endonuclease; Region: Mrr_cat; pfam04471 458233000062 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 458233000063 active site 458233000064 catalytic site [active] 458233000065 HTH-like domain; Region: HTH_21; pfam13276 458233000066 Integrase core domain; Region: rve; pfam00665 458233000067 DDE domain; Region: DDE_Tnp_IS240; pfam13610 458233000068 Integrase core domain; Region: rve_3; pfam13683 458233000069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 458233000070 Transposase; Region: HTH_Tnp_1; pfam01527 458233000071 Penicillinase repressor; Region: Pencillinase_R; cl17580 458233000072 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 458233000073 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 458233000074 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 458233000075 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 458233000076 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233000077 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 458233000078 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 458233000079 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 458233000080 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 458233000081 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 458233000082 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 458233000083 SEFIR domain; Region: SEFIR; pfam08357 458233000084 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 458233000085 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 458233000086 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 458233000087 catalytic residues [active] 458233000088 catalytic nucleophile [active] 458233000089 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000090 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000091 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000092 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000093 DNA binding site [nucleotide binding] 458233000094 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 458233000095 DNA-binding interface [nucleotide binding]; DNA binding site 458233000096 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000097 Integrase core domain; Region: rve; pfam00665 458233000098 Integrase core domain; Region: rve_3; cl15866 458233000099 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000100 Helix-turn-helix domain; Region: HTH_38; pfam13936 458233000101 Integrase core domain; Region: rve; pfam00665 458233000102 Integrase core domain; Region: rve_3; cl15866 458233000103 YolD-like protein; Region: YolD; pfam08863 458233000104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 458233000105 Integrase core domain; Region: rve; pfam00665 458233000106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 458233000107 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 458233000108 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458233000109 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 458233000110 Phosphotransferase enzyme family; Region: APH; pfam01636 458233000111 active site 458233000112 ATP binding site [chemical binding]; other site 458233000113 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 458233000114 substrate binding site [chemical binding]; other site 458233000115 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 458233000116 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 458233000117 S-adenosylmethionine binding site [chemical binding]; other site 458233000118 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000119 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 458233000120 catalytic residues [active] 458233000121 catalytic nucleophile [active] 458233000122 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000123 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000124 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000125 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000126 DNA binding site [nucleotide binding] 458233000127 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 458233000128 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 458233000129 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 458233000130 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 458233000131 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 458233000132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 458233000133 Integrase core domain; Region: rve; pfam00665 458233000134 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 458233000135 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000136 catalytic residues [active] 458233000137 catalytic nucleophile [active] 458233000138 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000139 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000140 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000141 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000142 DNA binding site [nucleotide binding] 458233000143 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 458233000144 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000145 catalytic residues [active] 458233000146 catalytic nucleophile [active] 458233000147 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000148 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000149 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000150 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000151 DNA binding site [nucleotide binding] 458233000152 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 458233000153 DNA-binding interface [nucleotide binding]; DNA binding site 458233000154 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 458233000155 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 458233000156 folate binding site [chemical binding]; other site 458233000157 NADP+ binding site [chemical binding]; other site 458233000158 Thymidylate synthase complementing protein; Region: Thy1; cl03630 458233000159 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458233000160 MPN+ (JAMM) motif; other site 458233000161 Zinc-binding site [ion binding]; other site 458233000162 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233000163 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 458233000164 P-loop; other site 458233000165 Magnesium ion binding site [ion binding]; other site 458233000166 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 458233000167 Magnesium ion binding site [ion binding]; other site 458233000168 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 458233000169 Cna protein B-type domain; Region: Cna_B; pfam05738 458233000170 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 458233000171 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 458233000172 phosphodiesterase; Provisional; Region: PRK12704 458233000173 Replication protein; Region: Rep_1; pfam01446 458233000174 Replication initiation factor; Region: Rep_trans; pfam02486 458233000175 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 458233000176 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 458233000177 DnaA N-terminal domain; Region: DnaA_N; pfam11638 458233000178 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 458233000179 Walker A motif; other site 458233000180 ATP binding site [chemical binding]; other site 458233000181 Walker B motif; other site 458233000182 arginine finger; other site 458233000183 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 458233000184 DnaA box-binding interface [nucleotide binding]; other site 458233000185 DNA polymerase III subunit beta; Validated; Region: PRK05643 458233000186 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 458233000187 putative DNA binding surface [nucleotide binding]; other site 458233000188 dimer interface [polypeptide binding]; other site 458233000189 beta-clamp/clamp loader binding surface; other site 458233000190 beta-clamp/translesion DNA polymerase binding surface; other site 458233000191 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 458233000192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000193 Walker A/P-loop; other site 458233000194 ATP binding site [chemical binding]; other site 458233000195 Q-loop/lid; other site 458233000196 ABC transporter signature motif; other site 458233000197 Walker B; other site 458233000198 D-loop; other site 458233000199 H-loop/switch region; other site 458233000200 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 458233000201 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458233000202 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 458233000203 Thioredoxin; Region: Thioredoxin_4; pfam13462 458233000204 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458233000205 recombination protein F; Reviewed; Region: recF; PRK00064 458233000206 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 458233000207 Walker A/P-loop; other site 458233000208 ATP binding site [chemical binding]; other site 458233000209 Q-loop/lid; other site 458233000210 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 458233000211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000212 ABC transporter signature motif; other site 458233000213 Walker B; other site 458233000214 D-loop; other site 458233000215 H-loop/switch region; other site 458233000216 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 458233000217 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 458233000218 Mg2+ binding site [ion binding]; other site 458233000219 G-X-G motif; other site 458233000220 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 458233000221 anchoring element; other site 458233000222 dimer interface [polypeptide binding]; other site 458233000223 ATP binding site [chemical binding]; other site 458233000224 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 458233000225 active site 458233000226 putative metal-binding site [ion binding]; other site 458233000227 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458233000228 DNA gyrase subunit A; Validated; Region: PRK05560 458233000229 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 458233000230 CAP-like domain; other site 458233000231 active site 458233000232 primary dimer interface [polypeptide binding]; other site 458233000233 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000234 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000235 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000236 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000237 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000238 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000239 acetolactate synthase; Reviewed; Region: PRK08617 458233000240 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458233000241 PYR/PP interface [polypeptide binding]; other site 458233000242 dimer interface [polypeptide binding]; other site 458233000243 TPP binding site [chemical binding]; other site 458233000244 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233000245 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 458233000246 TPP-binding site [chemical binding]; other site 458233000247 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 458233000248 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 458233000249 putative substrate binding site [chemical binding]; other site 458233000250 putative ATP binding site [chemical binding]; other site 458233000251 seryl-tRNA synthetase; Provisional; Region: PRK05431 458233000252 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 458233000253 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 458233000254 dimer interface [polypeptide binding]; other site 458233000255 active site 458233000256 motif 1; other site 458233000257 motif 2; other site 458233000258 motif 3; other site 458233000259 Uncharacterized conserved protein [Function unknown]; Region: COG2353 458233000260 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 458233000261 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 458233000262 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 458233000263 DHH family; Region: DHH; pfam01368 458233000264 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 458233000265 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 458233000266 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 458233000267 replicative DNA helicase; Region: DnaB; TIGR00665 458233000268 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 458233000269 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 458233000270 Walker A motif; other site 458233000271 ATP binding site [chemical binding]; other site 458233000272 Walker B motif; other site 458233000273 DNA binding loops [nucleotide binding] 458233000274 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 458233000275 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 458233000276 GDP-binding site [chemical binding]; other site 458233000277 ACT binding site; other site 458233000278 IMP binding site; other site 458233000279 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000280 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000281 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000282 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233000283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233000284 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 458233000285 active site 458233000286 phosphorylation site [posttranslational modification] 458233000287 intermolecular recognition site; other site 458233000288 dimerization interface [polypeptide binding]; other site 458233000289 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 458233000290 DNA binding site [nucleotide binding] 458233000291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 458233000292 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 458233000293 dimerization interface [polypeptide binding]; other site 458233000294 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 458233000295 putative active site [active] 458233000296 heme pocket [chemical binding]; other site 458233000297 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 458233000298 dimer interface [polypeptide binding]; other site 458233000299 phosphorylation site [posttranslational modification] 458233000300 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 458233000301 ATP binding site [chemical binding]; other site 458233000302 Mg2+ binding site [ion binding]; other site 458233000303 G-X-G motif; other site 458233000304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 458233000305 YycH protein; Region: YycH; pfam07435 458233000306 YycH protein; Region: YycI; cl02015 458233000307 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 458233000308 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 458233000309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000310 Coenzyme A binding pocket [chemical binding]; other site 458233000311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 458233000312 Helix-turn-helix domain; Region: HTH_38; pfam13936 458233000313 Winged helix-turn helix; Region: HTH_29; pfam13551 458233000314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000315 Walker A/P-loop; other site 458233000316 ATP binding site [chemical binding]; other site 458233000317 Q-loop/lid; other site 458233000318 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458233000319 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000320 AAA domain; Region: AAA_21; pfam13304 458233000321 Walker A/P-loop; other site 458233000322 ATP binding site [chemical binding]; other site 458233000323 Q-loop/lid; other site 458233000324 ABC transporter signature motif; other site 458233000325 Walker B; other site 458233000326 D-loop; other site 458233000327 H-loop/switch region; other site 458233000328 intracellular protease, PfpI family; Region: PfpI; TIGR01382 458233000329 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 458233000330 proposed catalytic triad [active] 458233000331 conserved cys residue [active] 458233000332 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458233000333 Protein of unknown function (DUF4004); Region: DUF4004; pfam13171 458233000334 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 458233000335 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 458233000336 nudix motif; other site 458233000337 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 458233000338 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 458233000339 tetramer interface [polypeptide binding]; other site 458233000340 active site 458233000341 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 458233000342 active site 458233000343 dimer interface [polypeptide binding]; other site 458233000344 magnesium binding site [ion binding]; other site 458233000345 Predicted transcriptional regulators [Transcription]; Region: COG1733 458233000346 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 458233000347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000348 Walker A/P-loop; other site 458233000349 ATP binding site [chemical binding]; other site 458233000350 Q-loop/lid; other site 458233000351 AAA domain; Region: AAA_21; pfam13304 458233000352 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458233000353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000354 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 458233000355 Walker A/P-loop; other site 458233000356 ATP binding site [chemical binding]; other site 458233000357 Q-loop/lid; other site 458233000358 ABC transporter signature motif; other site 458233000359 Walker B; other site 458233000360 D-loop; other site 458233000361 H-loop/switch region; other site 458233000362 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 458233000363 Na2 binding site [ion binding]; other site 458233000364 putative substrate binding site 1 [chemical binding]; other site 458233000365 Na binding site 1 [ion binding]; other site 458233000366 putative substrate binding site 2 [chemical binding]; other site 458233000367 TspO/MBR family; Region: TspO_MBR; pfam03073 458233000368 Predicted membrane protein [Function unknown]; Region: COG4270 458233000369 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458233000370 Predicted flavoprotein [General function prediction only]; Region: COG0431 458233000371 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233000372 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 458233000373 DNA binding residues [nucleotide binding] 458233000374 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458233000375 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458233000376 potential catalytic triad [active] 458233000377 conserved cys residue [active] 458233000378 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 458233000379 NADH(P)-binding; Region: NAD_binding_10; pfam13460 458233000380 NAD(P) binding site [chemical binding]; other site 458233000381 putative active site [active] 458233000382 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 458233000383 Prostaglandin dehydrogenases; Region: PGDH; cd05288 458233000384 NAD(P) binding site [chemical binding]; other site 458233000385 substrate binding site [chemical binding]; other site 458233000386 dimer interface [polypeptide binding]; other site 458233000387 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 458233000388 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 458233000389 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458233000390 MarR family; Region: MarR; pfam01047 458233000391 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458233000392 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 458233000393 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 458233000394 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 458233000395 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 458233000396 Surface antigen [General function prediction only]; Region: COG3942 458233000397 CHAP domain; Region: CHAP; pfam05257 458233000398 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458233000399 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 458233000400 tetramer interface [polypeptide binding]; other site 458233000401 heme binding pocket [chemical binding]; other site 458233000402 NADPH binding site [chemical binding]; other site 458233000403 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 458233000404 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 458233000405 putative ligand binding site [chemical binding]; other site 458233000406 putative NAD binding site [chemical binding]; other site 458233000407 catalytic site [active] 458233000408 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 458233000409 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233000410 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458233000411 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458233000412 conserved cys residue [active] 458233000413 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 458233000414 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 458233000415 homodimer interface [polypeptide binding]; other site 458233000416 substrate-cofactor binding pocket; other site 458233000417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233000418 catalytic residue [active] 458233000419 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 458233000420 heme binding pocket [chemical binding]; other site 458233000421 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 458233000422 catalytic residues [active] 458233000423 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 458233000424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000425 Coenzyme A binding pocket [chemical binding]; other site 458233000426 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233000427 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233000428 metal binding site [ion binding]; metal-binding site 458233000429 dimer interface [polypeptide binding]; other site 458233000430 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 458233000431 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 458233000432 TIGR01777 family protein; Region: yfcH 458233000433 putative NAD(P) binding site [chemical binding]; other site 458233000434 putative active site [active] 458233000435 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233000436 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458233000437 Zn binding site [ion binding]; other site 458233000438 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 458233000439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458233000440 Zn binding site [ion binding]; other site 458233000441 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233000442 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458233000443 Zn binding site [ion binding]; other site 458233000444 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 458233000445 Zn binding site [ion binding]; other site 458233000446 D-lactate dehydrogenase; Validated; Region: PRK08605 458233000447 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 458233000448 homodimer interface [polypeptide binding]; other site 458233000449 ligand binding site [chemical binding]; other site 458233000450 NAD binding site [chemical binding]; other site 458233000451 catalytic site [active] 458233000452 DoxX-like family; Region: DoxX_2; pfam13564 458233000453 Predicted esterase [General function prediction only]; Region: COG0400 458233000454 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; cl00364 458233000455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458233000456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458233000457 myosin-cross-reactive antigen; Provisional; Region: PRK13977 458233000458 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 458233000459 Na2 binding site [ion binding]; other site 458233000460 putative substrate binding site 1 [chemical binding]; other site 458233000461 Na binding site 1 [ion binding]; other site 458233000462 putative substrate binding site 2 [chemical binding]; other site 458233000463 Esterase/lipase [General function prediction only]; Region: COG1647 458233000464 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 458233000465 Spore germination protein; Region: Spore_permease; cl17796 458233000466 hydroperoxidase II; Provisional; Region: katE; PRK11249 458233000467 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 458233000468 tetramer interface [polypeptide binding]; other site 458233000469 heme binding pocket [chemical binding]; other site 458233000470 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 458233000471 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 458233000472 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458233000473 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458233000474 Protein of unknown function, DUF485; Region: DUF485; pfam04341 458233000475 potential frameshift: common BLAST hit: gi|23099897|ref|NP_693363.1| Na(+)-dependent symporter 458233000476 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 458233000477 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458233000478 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 458233000479 Na binding site [ion binding]; other site 458233000480 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233000481 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458233000482 Walker A/P-loop; other site 458233000483 ATP binding site [chemical binding]; other site 458233000484 Q-loop/lid; other site 458233000485 ABC transporter signature motif; other site 458233000486 Walker B; other site 458233000487 D-loop; other site 458233000488 H-loop/switch region; other site 458233000489 FtsX-like permease family; Region: FtsX; pfam02687 458233000490 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233000491 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 458233000492 active site 458233000493 phosphorylation site [posttranslational modification] 458233000494 intermolecular recognition site; other site 458233000495 dimerization interface [polypeptide binding]; other site 458233000496 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 458233000497 DNA binding site [nucleotide binding] 458233000498 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458233000499 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 458233000500 dimerization interface [polypeptide binding]; other site 458233000501 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 458233000502 dimer interface [polypeptide binding]; other site 458233000503 phosphorylation site [posttranslational modification] 458233000504 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 458233000505 ATP binding site [chemical binding]; other site 458233000506 Mg2+ binding site [ion binding]; other site 458233000507 G-X-G motif; other site 458233000508 oxidoreductase; Provisional; Region: PRK07985 458233000509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000510 NAD(P) binding site [chemical binding]; other site 458233000511 active site 458233000512 YibE/F-like protein; Region: YibE_F; pfam07907 458233000513 YibE/F-like protein; Region: YibE_F; pfam07907 458233000514 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 458233000515 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 458233000516 metal binding site [ion binding]; metal-binding site 458233000517 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 458233000518 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 458233000519 ABC-ATPase subunit interface; other site 458233000520 dimer interface [polypeptide binding]; other site 458233000521 putative PBP binding regions; other site 458233000522 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 458233000523 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 458233000524 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 458233000525 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 458233000526 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 458233000527 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 458233000528 peroxiredoxin; Region: AhpC; TIGR03137 458233000529 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 458233000530 dimer interface [polypeptide binding]; other site 458233000531 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458233000532 catalytic triad [active] 458233000533 peroxidatic and resolving cysteines [active] 458233000534 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 458233000535 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 458233000536 catalytic residue [active] 458233000537 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 458233000538 catalytic residues [active] 458233000539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233000540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233000541 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 458233000542 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 458233000543 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 458233000544 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 458233000545 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 458233000546 putative substrate translocation pore; other site 458233000547 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458233000548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000549 Walker A/P-loop; other site 458233000550 ATP binding site [chemical binding]; other site 458233000551 ABC transporter; Region: ABC_tran; pfam00005 458233000552 Q-loop/lid; other site 458233000553 ABC transporter signature motif; other site 458233000554 Walker B; other site 458233000555 D-loop; other site 458233000556 H-loop/switch region; other site 458233000557 azoreductase; Reviewed; Region: PRK00170 458233000558 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458233000559 hypothetical protein; Validated; Region: PRK00029 458233000560 Uncharacterized conserved protein [Function unknown]; Region: COG0397 458233000561 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 458233000562 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 458233000563 catalytic triad [active] 458233000564 catalytic triad [active] 458233000565 oxyanion hole [active] 458233000566 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 458233000567 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 458233000568 GAF domain; Region: GAF_3; pfam13492 458233000569 Histidine kinase; Region: His_kinase; pfam06580 458233000570 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 458233000571 ATP binding site [chemical binding]; other site 458233000572 Mg2+ binding site [ion binding]; other site 458233000573 G-X-G motif; other site 458233000574 two-component response regulator; Provisional; Region: PRK14084 458233000575 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 458233000576 active site 458233000577 phosphorylation site [posttranslational modification] 458233000578 intermolecular recognition site; other site 458233000579 dimerization interface [polypeptide binding]; other site 458233000580 LytTr DNA-binding domain; Region: LytTR; smart00850 458233000581 murein hydrolase regulator LrgA; Provisional; Region: PRK04125 458233000582 antiholin-like protein LrgB; Provisional; Region: PRK04288 458233000583 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458233000584 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233000585 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458233000586 Walker A/P-loop; other site 458233000587 ATP binding site [chemical binding]; other site 458233000588 Q-loop/lid; other site 458233000589 ABC transporter signature motif; other site 458233000590 Walker B; other site 458233000591 D-loop; other site 458233000592 H-loop/switch region; other site 458233000593 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000594 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000595 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233000596 Predicted membrane protein [Function unknown]; Region: COG1511 458233000597 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 458233000598 Predicted membrane protein [Function unknown]; Region: COG1511 458233000599 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 458233000600 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 458233000601 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 458233000602 ATP binding site [chemical binding]; other site 458233000603 substrate interface [chemical binding]; other site 458233000604 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 458233000605 ThiS interaction site; other site 458233000606 putative active site [active] 458233000607 tetramer interface [polypeptide binding]; other site 458233000608 hydroxyglutarate oxidase; Provisional; Region: PRK11728 458233000609 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 458233000610 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 458233000611 thiamine phosphate binding site [chemical binding]; other site 458233000612 active site 458233000613 pyrophosphate binding site [ion binding]; other site 458233000614 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000616 Coenzyme A binding pocket [chemical binding]; other site 458233000617 Integral membrane protein TerC family; Region: TerC; cl10468 458233000618 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 458233000619 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 458233000620 FemAB family; Region: FemAB; pfam02388 458233000621 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 458233000622 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 458233000623 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 458233000624 dimer interface [polypeptide binding]; other site 458233000625 conserved gate region; other site 458233000626 putative PBP binding loops; other site 458233000627 ABC-ATPase subunit interface; other site 458233000628 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458233000629 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458233000630 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458233000631 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458233000632 EamA-like transporter family; Region: EamA; pfam00892 458233000633 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 458233000634 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 458233000635 intersubunit interface [polypeptide binding]; other site 458233000636 BioY family; Region: BioY; pfam02632 458233000637 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 458233000638 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 458233000639 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 458233000640 [4Fe-4S] binding site [ion binding]; other site 458233000641 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 458233000642 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 458233000643 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 458233000644 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 458233000645 molybdopterin cofactor binding site; other site 458233000646 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 458233000647 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458233000648 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 458233000649 GAF domain; Region: GAF_2; pfam13185 458233000650 PAS domain; Region: PAS_9; pfam13426 458233000651 Histidine kinase; Region: HisKA_3; pfam07730 458233000652 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458233000653 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 458233000654 ATP binding site [chemical binding]; other site 458233000655 Mg2+ binding site [ion binding]; other site 458233000656 G-X-G motif; other site 458233000657 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233000658 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 458233000659 active site 458233000660 phosphorylation site [posttranslational modification] 458233000661 intermolecular recognition site; other site 458233000662 dimerization interface [polypeptide binding]; other site 458233000663 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 458233000664 DNA binding residues [nucleotide binding] 458233000665 dimerization interface [polypeptide binding]; other site 458233000666 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 458233000667 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458233000668 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 458233000669 putative substrate translocation pore; other site 458233000670 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 458233000671 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 458233000672 ATP binding site [chemical binding]; other site 458233000673 substrate interface [chemical binding]; other site 458233000674 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 458233000675 MPT binding site; other site 458233000676 trimer interface [polypeptide binding]; other site 458233000677 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 458233000678 trimer interface [polypeptide binding]; other site 458233000679 dimer interface [polypeptide binding]; other site 458233000680 putative active site [active] 458233000681 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 458233000682 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 458233000683 dimer interface [polypeptide binding]; other site 458233000684 putative functional site; other site 458233000685 putative MPT binding site; other site 458233000686 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 458233000687 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 458233000688 MoaE homodimer interface [polypeptide binding]; other site 458233000689 MoaD interaction [polypeptide binding]; other site 458233000690 active site residues [active] 458233000691 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 458233000692 MoaE interaction surface [polypeptide binding]; other site 458233000693 MoeB interaction surface [polypeptide binding]; other site 458233000694 thiocarboxylated glycine; other site 458233000695 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 458233000696 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 458233000697 GTP binding site; other site 458233000698 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 458233000699 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 458233000700 FeS/SAM binding site; other site 458233000701 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458233000702 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 458233000703 Fatty acid desaturase; Region: FA_desaturase; pfam00487 458233000704 putative di-iron ligands [ion binding]; other site 458233000705 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 458233000706 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 458233000707 putative NAD(P) binding site [chemical binding]; other site 458233000708 active site 458233000709 putative substrate binding site [chemical binding]; other site 458233000710 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 458233000711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233000712 putative substrate translocation pore; other site 458233000713 MarR family; Region: MarR_2; pfam12802 458233000714 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458233000715 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 458233000716 tetramerization interface [polypeptide binding]; other site 458233000717 NAD(P) binding site [chemical binding]; other site 458233000718 catalytic residues [active] 458233000719 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 458233000720 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 458233000721 putative substrate translocation pore; other site 458233000722 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 458233000723 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 458233000724 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 458233000725 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458233000726 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458233000727 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458233000728 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 458233000729 L-lactate permease; Region: Lactate_perm; cl00701 458233000730 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 458233000731 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 458233000732 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233000733 NAD binding site [chemical binding]; other site 458233000734 dimer interface [polypeptide binding]; other site 458233000735 substrate binding site [chemical binding]; other site 458233000736 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000737 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000738 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233000739 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 458233000740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233000741 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458233000742 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458233000743 Walker A/P-loop; other site 458233000744 ATP binding site [chemical binding]; other site 458233000745 Q-loop/lid; other site 458233000746 ABC transporter signature motif; other site 458233000747 Walker B; other site 458233000748 D-loop; other site 458233000749 H-loop/switch region; other site 458233000750 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 458233000751 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 458233000752 ABC-ATPase subunit interface; other site 458233000753 dimer interface [polypeptide binding]; other site 458233000754 putative PBP binding regions; other site 458233000755 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 458233000756 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 458233000757 ABC-ATPase subunit interface; other site 458233000758 dimer interface [polypeptide binding]; other site 458233000759 putative PBP binding regions; other site 458233000760 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 458233000761 G1 box; other site 458233000762 GTP/Mg2+ binding site [chemical binding]; other site 458233000763 Switch I region; other site 458233000764 G3 box; other site 458233000765 Switch II region; other site 458233000766 G4 box; other site 458233000767 G5 box; other site 458233000768 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233000769 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 458233000770 Ca binding site [ion binding]; other site 458233000771 active site 458233000772 catalytic site [active] 458233000773 Transcriptional regulators [Transcription]; Region: FadR; COG2186 458233000774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233000775 DNA-binding site [nucleotide binding]; DNA binding site 458233000776 FCD domain; Region: FCD; pfam07729 458233000777 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458233000778 Cysteine-rich domain; Region: CCG; pfam02754 458233000779 Cysteine-rich domain; Region: CCG; pfam02754 458233000780 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 458233000781 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 458233000782 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 458233000783 Uncharacterized conserved protein [Function unknown]; Region: COG1556 458233000784 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 458233000785 FemAB family; Region: FemAB; pfam02388 458233000786 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 458233000787 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 458233000788 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 458233000789 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458233000790 Protein export membrane protein; Region: SecD_SecF; cl14618 458233000791 Protein export membrane protein; Region: SecD_SecF; cl14618 458233000792 transaminase; Reviewed; Region: PRK08068 458233000793 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 458233000794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233000795 homodimer interface [polypeptide binding]; other site 458233000796 catalytic residue [active] 458233000797 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 458233000798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233000799 putative substrate translocation pore; other site 458233000800 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 458233000801 putative deacylase active site [active] 458233000802 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233000803 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 458233000804 active site 458233000805 metal binding site [ion binding]; metal-binding site 458233000806 Predicted permeases [General function prediction only]; Region: COG0679 458233000807 glucose-1-dehydrogenase; Provisional; Region: PRK08936 458233000808 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 458233000809 NAD binding site [chemical binding]; other site 458233000810 homodimer interface [polypeptide binding]; other site 458233000811 active site 458233000812 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 458233000813 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000814 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000815 Coenzyme A binding pocket [chemical binding]; other site 458233000816 DNA topoisomerase III; Provisional; Region: PRK07726 458233000817 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 458233000818 active site 458233000819 putative interdomain interaction site [polypeptide binding]; other site 458233000820 putative metal-binding site [ion binding]; other site 458233000821 putative nucleotide binding site [chemical binding]; other site 458233000822 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 458233000823 domain I; other site 458233000824 DNA binding groove [nucleotide binding] 458233000825 phosphate binding site [ion binding]; other site 458233000826 domain II; other site 458233000827 domain III; other site 458233000828 nucleotide binding site [chemical binding]; other site 458233000829 catalytic site [active] 458233000830 domain IV; other site 458233000831 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 458233000832 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 458233000833 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 458233000834 transmembrane helices; other site 458233000835 Predicted membrane protein [Function unknown]; Region: COG3212 458233000836 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458233000837 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458233000838 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458233000839 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 458233000840 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 458233000841 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 458233000842 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 458233000843 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 458233000844 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 458233000845 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 458233000846 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 458233000847 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 458233000848 putative translocon binding site; other site 458233000849 protein-rRNA interface [nucleotide binding]; other site 458233000850 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 458233000851 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 458233000852 G-X-X-G motif; other site 458233000853 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 458233000854 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 458233000855 23S rRNA interface [nucleotide binding]; other site 458233000856 5S rRNA interface [nucleotide binding]; other site 458233000857 putative antibiotic binding site [chemical binding]; other site 458233000858 L25 interface [polypeptide binding]; other site 458233000859 L27 interface [polypeptide binding]; other site 458233000860 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 458233000861 23S rRNA interface [nucleotide binding]; other site 458233000862 putative translocon interaction site; other site 458233000863 signal recognition particle (SRP54) interaction site; other site 458233000864 L23 interface [polypeptide binding]; other site 458233000865 trigger factor interaction site; other site 458233000866 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 458233000867 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 458233000868 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 458233000869 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 458233000870 RNA binding site [nucleotide binding]; other site 458233000871 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 458233000872 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 458233000873 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 458233000874 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 458233000875 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 458233000876 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 458233000877 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458233000878 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458233000879 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 458233000880 5S rRNA interface [nucleotide binding]; other site 458233000881 L27 interface [polypeptide binding]; other site 458233000882 23S rRNA interface [nucleotide binding]; other site 458233000883 L5 interface [polypeptide binding]; other site 458233000884 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 458233000885 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 458233000886 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 458233000887 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 458233000888 23S rRNA binding site [nucleotide binding]; other site 458233000889 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 458233000890 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 458233000891 SecY translocase; Region: SecY; pfam00344 458233000892 adenylate kinase; Reviewed; Region: adk; PRK00279 458233000893 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 458233000894 AMP-binding site [chemical binding]; other site 458233000895 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 458233000896 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 458233000897 rRNA binding site [nucleotide binding]; other site 458233000898 predicted 30S ribosome binding site; other site 458233000899 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 458233000900 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 458233000901 30S ribosomal protein S13; Region: bact_S13; TIGR03631 458233000902 30S ribosomal protein S11; Validated; Region: PRK05309 458233000903 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 458233000904 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 458233000905 alphaNTD homodimer interface [polypeptide binding]; other site 458233000906 alphaNTD - beta interaction site [polypeptide binding]; other site 458233000907 alphaNTD - beta' interaction site [polypeptide binding]; other site 458233000908 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 458233000909 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 458233000910 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 458233000911 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 458233000912 Walker A/P-loop; other site 458233000913 ATP binding site [chemical binding]; other site 458233000914 Q-loop/lid; other site 458233000915 ABC transporter signature motif; other site 458233000916 Walker B; other site 458233000917 D-loop; other site 458233000918 H-loop/switch region; other site 458233000919 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 458233000920 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 458233000921 Walker A/P-loop; other site 458233000922 ATP binding site [chemical binding]; other site 458233000923 Q-loop/lid; other site 458233000924 ABC transporter signature motif; other site 458233000925 Walker B; other site 458233000926 D-loop; other site 458233000927 H-loop/switch region; other site 458233000928 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 458233000929 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 458233000930 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 458233000931 dimerization interface 3.5A [polypeptide binding]; other site 458233000932 active site 458233000933 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 458233000934 23S rRNA interface [nucleotide binding]; other site 458233000935 L3 interface [polypeptide binding]; other site 458233000936 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 458233000937 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 458233000938 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 458233000939 Int/Topo IB signature motif; other site 458233000940 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233000941 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 458233000942 non-specific DNA binding site [nucleotide binding]; other site 458233000943 salt bridge; other site 458233000944 sequence-specific DNA binding site [nucleotide binding]; other site 458233000945 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 458233000946 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 458233000947 DNA methylase; Region: N6_N4_Mtase; pfam01555 458233000948 DNA methylase; Region: N6_N4_Mtase; cl17433 458233000949 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 458233000950 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 458233000951 ATP binding site [chemical binding]; other site 458233000952 putative Mg++ binding site [ion binding]; other site 458233000953 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000954 Helix-turn-helix domain; Region: HTH_38; pfam13936 458233000955 Integrase core domain; Region: rve; pfam00665 458233000956 Integrase core domain; Region: rve_3; cl15866 458233000957 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 458233000958 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 458233000959 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 458233000960 Walker A motif; other site 458233000961 ATP binding site [chemical binding]; other site 458233000962 Walker B motif; other site 458233000963 arginine finger; other site 458233000964 Aminoglycoside-2''-adenylyltransferase; Region: Aminoglyc_resit; pfam10706 458233000965 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000966 Integrase core domain; Region: rve; pfam00665 458233000967 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 458233000968 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233000969 Soluble P-type ATPase [General function prediction only]; Region: COG4087 458233000970 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 458233000971 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 458233000972 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 458233000973 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 458233000974 putative dimer interface [polypeptide binding]; other site 458233000975 catalytic triad [active] 458233000976 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458233000977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000978 Coenzyme A binding pocket [chemical binding]; other site 458233000979 DoxX-like family; Region: DoxX_2; pfam13564 458233000980 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458233000981 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 458233000982 putative active site [active] 458233000983 putative FMN binding site [chemical binding]; other site 458233000984 putative substrate binding site [chemical binding]; other site 458233000985 putative catalytic residue [active] 458233000986 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 458233000987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000988 NAD(P) binding site [chemical binding]; other site 458233000989 active site 458233000990 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233000991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233000992 Walker A/P-loop; other site 458233000993 ATP binding site [chemical binding]; other site 458233000994 Q-loop/lid; other site 458233000995 ABC transporter signature motif; other site 458233000996 Walker B; other site 458233000997 D-loop; other site 458233000998 H-loop/switch region; other site 458233000999 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 458233001000 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 458233001001 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 458233001002 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 458233001003 NAD(P) binding site [chemical binding]; other site 458233001004 LDH/MDH dimer interface [polypeptide binding]; other site 458233001005 substrate binding site [chemical binding]; other site 458233001006 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 458233001007 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 458233001008 Sulfate transporter family; Region: Sulfate_transp; pfam00916 458233001009 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 458233001010 Ligand Binding Site [chemical binding]; other site 458233001011 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 458233001012 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 458233001013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233001014 catalytic residue [active] 458233001015 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 458233001016 substrate binding site [chemical binding]; other site 458233001017 THF binding site; other site 458233001018 zinc-binding site [ion binding]; other site 458233001019 methionine sulfoxide reductase A; Provisional; Region: PRK05528 458233001020 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233001021 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 458233001022 metal-binding site [ion binding] 458233001023 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233001024 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 458233001025 metal-binding site [ion binding] 458233001026 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233001027 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 458233001028 motif II; other site 458233001029 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 458233001030 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 458233001031 HD domain; Region: HD_3; pfam13023 458233001032 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 458233001033 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458233001034 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458233001035 Nuclease-related domain; Region: NERD; pfam08378 458233001036 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 458233001037 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 458233001038 DNA binding residues [nucleotide binding] 458233001039 dimer interface [polypeptide binding]; other site 458233001040 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 458233001041 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 458233001042 catalytic triad [active] 458233001043 active site nucleophile [active] 458233001044 hypothetical protein; Provisional; Region: PRK06762 458233001045 AAA domain; Region: AAA_33; pfam13671 458233001046 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233001047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233001048 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458233001049 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 458233001050 putative substrate translocation pore; other site 458233001051 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 458233001052 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 458233001053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 458233001054 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001055 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001056 DNA binding site [nucleotide binding] 458233001057 domain linker motif; other site 458233001058 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233001059 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 458233001060 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 458233001061 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 458233001062 active site turn [active] 458233001063 phosphorylation site [posttranslational modification] 458233001064 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 458233001065 HPr interaction site; other site 458233001066 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233001067 active site 458233001068 phosphorylation site [posttranslational modification] 458233001069 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 458233001070 putative catalytic site [active] 458233001071 putative metal binding site [ion binding]; other site 458233001072 putative phosphate binding site [ion binding]; other site 458233001073 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233001074 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 458233001075 active site 458233001076 phosphorylation site [posttranslational modification] 458233001077 intermolecular recognition site; other site 458233001078 dimerization interface [polypeptide binding]; other site 458233001079 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 458233001080 DNA binding site [nucleotide binding] 458233001081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458233001082 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 458233001083 ATP binding site [chemical binding]; other site 458233001084 Mg2+ binding site [ion binding]; other site 458233001085 G-X-G motif; other site 458233001086 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233001087 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458233001088 Walker A/P-loop; other site 458233001089 ATP binding site [chemical binding]; other site 458233001090 Q-loop/lid; other site 458233001091 ABC transporter signature motif; other site 458233001092 Walker B; other site 458233001093 D-loop; other site 458233001094 H-loop/switch region; other site 458233001095 FtsX-like permease family; Region: FtsX; pfam02687 458233001096 FtsX-like permease family; Region: FtsX; pfam02687 458233001097 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 458233001098 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233001099 Soluble P-type ATPase [General function prediction only]; Region: COG4087 458233001100 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458233001101 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 458233001102 ligand binding site [chemical binding]; other site 458233001103 flexible hinge region; other site 458233001104 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 458233001105 non-specific DNA interactions [nucleotide binding]; other site 458233001106 DNA binding site [nucleotide binding] 458233001107 sequence specific DNA binding site [nucleotide binding]; other site 458233001108 putative cAMP binding site [chemical binding]; other site 458233001109 pyruvate phosphate dikinase; Provisional; Region: PRK09279 458233001110 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 458233001111 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 458233001112 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 458233001113 PEP synthetase regulatory protein; Provisional; Region: PRK05339 458233001114 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 458233001115 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 458233001116 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 458233001117 oligomer interface [polypeptide binding]; other site 458233001118 Protein of unknown function, DUF606; Region: DUF606; pfam04657 458233001119 Protein of unknown function, DUF606; Region: DUF606; pfam04657 458233001120 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233001121 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458233001122 Walker A/P-loop; other site 458233001123 ATP binding site [chemical binding]; other site 458233001124 Q-loop/lid; other site 458233001125 ABC transporter signature motif; other site 458233001126 Walker B; other site 458233001127 D-loop; other site 458233001128 H-loop/switch region; other site 458233001129 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 458233001130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458233001131 DHHC palmitoyltransferase; Region: zf-DHHC; pfam01529 458233001132 Histidine kinase; Region: HisKA_3; pfam07730 458233001133 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 458233001134 ATP binding site [chemical binding]; other site 458233001135 Mg2+ binding site [ion binding]; other site 458233001136 G-X-G motif; other site 458233001137 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233001138 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 458233001139 active site 458233001140 phosphorylation site [posttranslational modification] 458233001141 intermolecular recognition site; other site 458233001142 dimerization interface [polypeptide binding]; other site 458233001143 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 458233001144 DNA binding residues [nucleotide binding] 458233001145 dimerization interface [polypeptide binding]; other site 458233001146 LrgA family; Region: LrgA; pfam03788 458233001147 LrgB-like family; Region: LrgB; pfam04172 458233001148 ThiC-associated domain; Region: ThiC-associated; pfam13667 458233001149 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 458233001150 ThiC family; Region: ThiC; pfam01964 458233001151 Protein of unknown function (DUF402); Region: DUF402; pfam04167 458233001152 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233001153 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 458233001154 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458233001155 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 458233001156 putative substrate translocation pore; other site 458233001157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233001158 Coenzyme A binding pocket [chemical binding]; other site 458233001159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 458233001160 Nucleoside recognition; Region: Gate; pfam07670 458233001161 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458233001162 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 458233001163 classical (c) SDRs; Region: SDR_c; cd05233 458233001164 NAD(P) binding site [chemical binding]; other site 458233001165 active site 458233001166 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 458233001167 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 458233001168 putative substrate translocation pore; other site 458233001169 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458233001170 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 458233001171 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 458233001172 active site 458233001173 HlyD family secretion protein; Region: HlyD_2; pfam12700 458233001174 Predicted metalloprotease [General function prediction only]; Region: COG2321 458233001175 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 458233001176 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 458233001177 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 458233001178 active site 458233001179 Na/Ca binding site [ion binding]; other site 458233001180 catalytic site [active] 458233001181 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 458233001182 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 458233001183 KinB-signalling pathway activation in sporulation; Region: KbaA; pfam14089 458233001184 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 458233001185 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233001186 putative substrate translocation pore; other site 458233001187 Arginase family; Region: Arginase; cd09989 458233001188 active site 458233001189 Mn binding site [ion binding]; other site 458233001190 oligomer interface [polypeptide binding]; other site 458233001191 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 458233001192 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233001193 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 458233001194 dimerization interface [polypeptide binding]; other site 458233001195 putative DNA binding site [nucleotide binding]; other site 458233001196 putative Zn2+ binding site [ion binding]; other site 458233001197 Uncharacterized conserved protein [Function unknown]; Region: COG1624 458233001198 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 458233001199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 458233001200 YbbR-like protein; Region: YbbR; pfam07949 458233001201 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 458233001202 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 458233001203 active site 458233001204 substrate binding site [chemical binding]; other site 458233001205 metal binding site [ion binding]; metal-binding site 458233001206 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 458233001207 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 458233001208 glutaminase active site [active] 458233001209 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 458233001210 dimer interface [polypeptide binding]; other site 458233001211 active site 458233001212 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 458233001213 dimer interface [polypeptide binding]; other site 458233001214 active site 458233001215 Esterase/lipase [General function prediction only]; Region: COG1647 458233001216 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 458233001217 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233001218 endonuclease III; Region: ENDO3c; smart00478 458233001219 minor groove reading motif; other site 458233001220 helix-hairpin-helix signature motif; other site 458233001221 substrate binding pocket [chemical binding]; other site 458233001222 active site 458233001223 Z1 domain; Region: Z1; pfam10593 458233001224 S-methylmethionine transporter; Provisional; Region: PRK11387 458233001225 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 458233001226 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 458233001227 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458233001228 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 458233001229 substrate binding site [chemical binding]; other site 458233001230 ATP binding site [chemical binding]; other site 458233001231 Uncharacterized conserved protein [Function unknown]; Region: COG1479 458233001232 Protein of unknown function DUF262; Region: DUF262; pfam03235 458233001233 Protein of unknown function DUF262; Region: DUF262; pfam03235 458233001234 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 458233001235 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 458233001236 GIY-YIG motif/motif A; other site 458233001237 putative active site [active] 458233001238 putative metal binding site [ion binding]; other site 458233001239 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 458233001240 Uncharacterized conserved protein [Function unknown]; Region: COG3410 458233001241 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 458233001242 homodimer interface [polypeptide binding]; other site 458233001243 chemical substrate binding site [chemical binding]; other site 458233001244 oligomer interface [polypeptide binding]; other site 458233001245 metal binding site [ion binding]; metal-binding site 458233001246 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 458233001247 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 458233001248 putative active site [active] 458233001249 putative NTP binding site [chemical binding]; other site 458233001250 putative nucleic acid binding site [nucleotide binding]; other site 458233001251 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 458233001252 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458233001253 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 458233001254 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233001255 putative active site [active] 458233001256 putative metal binding site [ion binding]; other site 458233001257 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 458233001258 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 458233001259 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 458233001260 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 458233001261 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 458233001262 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 458233001263 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233001264 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 458233001265 ABC-ATPase subunit interface; other site 458233001266 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233001267 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 458233001268 dimer interface [polypeptide binding]; other site 458233001269 conserved gate region; other site 458233001270 putative PBP binding loops; other site 458233001271 ABC-ATPase subunit interface; other site 458233001272 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458233001273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233001274 Walker A/P-loop; other site 458233001275 ATP binding site [chemical binding]; other site 458233001276 Q-loop/lid; other site 458233001277 ABC transporter signature motif; other site 458233001278 Walker B; other site 458233001279 D-loop; other site 458233001280 H-loop/switch region; other site 458233001281 TOBE domain; Region: TOBE_2; pfam08402 458233001282 histidinol-phosphatase; Validated; Region: PRK06740 458233001283 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 458233001284 dimer interface [polypeptide binding]; other site 458233001285 active site 458233001286 ornithine cyclodeaminase; Validated; Region: PRK08618 458233001287 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 458233001288 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 458233001289 metabolite-proton symporter; Region: 2A0106; TIGR00883 458233001290 putative substrate translocation pore; other site 458233001291 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 458233001292 non-specific DNA binding site [nucleotide binding]; other site 458233001293 salt bridge; other site 458233001294 sequence-specific DNA binding site [nucleotide binding]; other site 458233001295 Cupin domain; Region: Cupin_2; pfam07883 458233001296 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001297 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001298 DNA binding site [nucleotide binding] 458233001299 domain linker motif; other site 458233001300 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 458233001301 dimerization interface [polypeptide binding]; other site 458233001302 ligand binding site [chemical binding]; other site 458233001303 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458233001304 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 458233001305 substrate binding site [chemical binding]; other site 458233001306 dimer interface [polypeptide binding]; other site 458233001307 ATP binding site [chemical binding]; other site 458233001308 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 458233001309 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 458233001310 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 458233001311 active site 458233001312 catalytic residues [active] 458233001313 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 458233001314 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 458233001315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 458233001316 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233001317 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 458233001318 dimer interface [polypeptide binding]; other site 458233001319 conserved gate region; other site 458233001320 putative PBP binding loops; other site 458233001321 ABC-ATPase subunit interface; other site 458233001322 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 458233001323 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 458233001324 dimer interface [polypeptide binding]; other site 458233001325 conserved gate region; other site 458233001326 putative PBP binding loops; other site 458233001327 ABC-ATPase subunit interface; other site 458233001328 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001329 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001330 DNA binding site [nucleotide binding] 458233001331 domain linker motif; other site 458233001332 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233001333 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458233001334 conserved cys residue [active] 458233001335 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233001336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 458233001337 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 458233001338 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233001339 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 458233001340 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 458233001341 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 458233001342 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 458233001343 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 458233001344 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 458233001345 Walker A/P-loop; other site 458233001346 ATP binding site [chemical binding]; other site 458233001347 Q-loop/lid; other site 458233001348 ABC transporter signature motif; other site 458233001349 Walker B; other site 458233001350 D-loop; other site 458233001351 H-loop/switch region; other site 458233001352 TOBE domain; Region: TOBE; pfam03459 458233001353 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233001354 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 458233001355 Ca binding site [ion binding]; other site 458233001356 active site 458233001357 catalytic site [active] 458233001358 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 458233001359 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 458233001360 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 458233001361 domain interaction interfaces [polypeptide binding]; other site 458233001362 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 458233001363 metal ion-dependent adhesion site (MIDAS); other site 458233001364 Cna protein B-type domain; Region: Cna_B; pfam05738 458233001365 Cna protein B-type domain; Region: Cna_B; pfam05738 458233001366 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 458233001367 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 458233001368 Cna protein B-type domain; Region: Cna_B; pfam05738 458233001369 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 458233001370 active site 458233001371 catalytic site [active] 458233001372 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 458233001373 active site 458233001374 catalytic site [active] 458233001375 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 458233001376 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 458233001377 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233001378 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233001379 metal binding site [ion binding]; metal-binding site 458233001380 dimer interface [polypeptide binding]; other site 458233001381 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 458233001382 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 458233001383 putative substrate translocation pore; other site 458233001384 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 458233001385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233001386 Walker A/P-loop; other site 458233001387 ATP binding site [chemical binding]; other site 458233001388 Q-loop/lid; other site 458233001389 ABC transporter signature motif; other site 458233001390 Walker B; other site 458233001391 D-loop; other site 458233001392 H-loop/switch region; other site 458233001393 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001394 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001395 DNA binding site [nucleotide binding] 458233001396 domain linker motif; other site 458233001397 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 458233001398 dimerization interface [polypeptide binding]; other site 458233001399 ligand binding site [chemical binding]; other site 458233001400 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 458233001401 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 458233001402 substrate binding [chemical binding]; other site 458233001403 active site 458233001404 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 458233001405 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458233001406 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 458233001407 putative substrate binding site [chemical binding]; other site 458233001408 putative ATP binding site [chemical binding]; other site 458233001409 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 458233001410 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 458233001411 active site turn [active] 458233001412 phosphorylation site [posttranslational modification] 458233001413 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 458233001414 biotin synthase; Validated; Region: PRK06256 458233001415 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 458233001416 FeS/SAM binding site; other site 458233001417 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 458233001418 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 458233001419 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 458233001420 ATP binding site [chemical binding]; other site 458233001421 putative Mg++ binding site [ion binding]; other site 458233001422 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 458233001423 nucleotide binding region [chemical binding]; other site 458233001424 ATP-binding site [chemical binding]; other site 458233001425 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 458233001426 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233001427 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458233001428 Predicted transporter component [General function prediction only]; Region: COG2391 458233001429 Sulphur transport; Region: Sulf_transp; pfam04143 458233001430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 458233001431 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 458233001432 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458233001433 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458233001434 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 458233001435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233001436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233001437 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233001438 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 458233001439 active site residue [active] 458233001440 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 458233001441 CPxP motif; other site 458233001442 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 458233001443 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233001444 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 458233001445 active site residue [active] 458233001446 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 458233001447 AC domain interface; other site 458233001448 catalytic triad [active] 458233001449 AB domain interface; other site 458233001450 putative substrate binding pocket [chemical binding]; other site 458233001451 interchain disulfide; other site 458233001452 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 458233001453 S-adenosylmethionine binding site [chemical binding]; other site 458233001454 malate:quinone oxidoreductase; Validated; Region: PRK05257 458233001455 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 458233001456 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 458233001457 Sodium Bile acid symporter family; Region: SBF; cl17470 458233001458 Nuclease-related domain; Region: NERD; pfam08378 458233001459 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 458233001460 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458233001461 NAD(P) binding site [chemical binding]; other site 458233001462 catalytic residues [active] 458233001463 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 458233001464 NlpC/P60 family; Region: NLPC_P60; pfam00877 458233001465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233001466 Coenzyme A binding pocket [chemical binding]; other site 458233001467 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 458233001468 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 458233001469 DNA binding site [nucleotide binding] 458233001470 active site 458233001471 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 458233001472 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 458233001473 PhnA protein; Region: PhnA; pfam03831 458233001474 Predicted membrane protein [Function unknown]; Region: COG2311 458233001475 Protein of unknown function (DUF418); Region: DUF418; cl12135 458233001476 Protein of unknown function (DUF418); Region: DUF418; pfam04235 458233001477 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458233001478 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 458233001479 putative substrate translocation pore; other site 458233001480 Uncharacterized membrane protein [Function unknown]; Region: COG3949 458233001481 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 458233001482 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458233001483 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233001484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001485 NAD(P) binding site [chemical binding]; other site 458233001486 active site 458233001487 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 458233001488 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 458233001489 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458233001490 Serine hydrolase; Region: Ser_hydrolase; cl17834 458233001491 FCD domain; Region: FCD; pfam07729 458233001492 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 458233001493 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 458233001494 N- and C-terminal domain interface [polypeptide binding]; other site 458233001495 active site 458233001496 catalytic site [active] 458233001497 metal binding site [ion binding]; metal-binding site 458233001498 carbohydrate binding site [chemical binding]; other site 458233001499 ATP binding site [chemical binding]; other site 458233001500 fructuronate transporter; Provisional; Region: PRK10034; cl15264 458233001501 gluconate transporter; Region: gntP; TIGR00791 458233001502 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 458233001503 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 458233001504 hypothetical protein; Provisional; Region: PRK12378 458233001505 Uncharacterized conserved protein [Function unknown]; Region: COG3542 458233001506 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458233001507 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 458233001508 dimer interface [polypeptide binding]; other site 458233001509 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458233001510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001511 NAD(P) binding site [chemical binding]; other site 458233001512 active site 458233001513 Predicted transcriptional regulators [Transcription]; Region: COG1725 458233001514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233001515 DNA-binding site [nucleotide binding]; DNA binding site 458233001516 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233001517 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458233001518 Walker A/P-loop; other site 458233001519 ATP binding site [chemical binding]; other site 458233001520 Q-loop/lid; other site 458233001521 ABC transporter signature motif; other site 458233001522 Walker B; other site 458233001523 D-loop; other site 458233001524 H-loop/switch region; other site 458233001525 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 458233001526 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 458233001527 putative active site [active] 458233001528 putative catalytic site [active] 458233001529 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 458233001530 PLD-like domain; Region: PLDc_2; pfam13091 458233001531 putative active site [active] 458233001532 putative catalytic site [active] 458233001533 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 458233001534 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 458233001535 Walker A/P-loop; other site 458233001536 ATP binding site [chemical binding]; other site 458233001537 Q-loop/lid; other site 458233001538 ABC transporter signature motif; other site 458233001539 Walker B; other site 458233001540 D-loop; other site 458233001541 H-loop/switch region; other site 458233001542 NIL domain; Region: NIL; pfam09383 458233001543 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 458233001544 dimer interface [polypeptide binding]; other site 458233001545 conserved gate region; other site 458233001546 ABC-ATPase subunit interface; other site 458233001547 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 458233001548 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 458233001549 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 458233001550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458233001551 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 458233001552 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458233001553 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458233001554 lipoyl-biotinyl attachment site [posttranslational modification]; other site 458233001555 HlyD family secretion protein; Region: HlyD_3; pfam13437 458233001556 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 458233001557 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458233001558 putative substrate translocation pore; other site 458233001559 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233001560 short chain dehydrogenase; Provisional; Region: PRK06701 458233001561 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 458233001562 NAD binding site [chemical binding]; other site 458233001563 metal binding site [ion binding]; metal-binding site 458233001564 active site 458233001565 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 458233001566 active site 458233001567 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458233001568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458233001569 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 458233001570 dimerization interface [polypeptide binding]; other site 458233001571 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233001572 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 458233001573 synthetase active site [active] 458233001574 NTP binding site [chemical binding]; other site 458233001575 metal binding site [ion binding]; metal-binding site 458233001576 sugar efflux transporter; Region: 2A0120; TIGR00899 458233001577 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 458233001578 putative substrate translocation pore; other site 458233001579 Protein of unknown function (DUF456); Region: DUF456; pfam04306 458233001580 DinB family; Region: DinB; cl17821 458233001581 DinB superfamily; Region: DinB_2; pfam12867 458233001582 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458233001583 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 458233001584 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 458233001585 FeS/SAM binding site; other site 458233001586 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 458233001587 Pyruvate formate lyase 1; Region: PFL1; cd01678 458233001588 coenzyme A binding site [chemical binding]; other site 458233001589 active site 458233001590 catalytic residues [active] 458233001591 glycine loop; other site 458233001592 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458233001593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233001594 Coenzyme A binding pocket [chemical binding]; other site 458233001595 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 458233001596 High molecular weight glutenin subunit; Region: Glutenin_hmw; pfam03157 458233001597 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458233001598 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458233001599 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458233001600 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458233001601 Uncharacterized conserved protein [Function unknown]; Region: COG1683 458233001602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233001603 Coenzyme A binding pocket [chemical binding]; other site 458233001604 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 458233001605 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458233001606 MarR family; Region: MarR; pfam01047 458233001607 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 458233001608 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233001609 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233001610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233001611 Walker A/P-loop; other site 458233001612 ATP binding site [chemical binding]; other site 458233001613 Q-loop/lid; other site 458233001614 ABC transporter signature motif; other site 458233001615 Walker B; other site 458233001616 D-loop; other site 458233001617 H-loop/switch region; other site 458233001618 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 458233001619 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 458233001620 Walker A/P-loop; other site 458233001621 ATP binding site [chemical binding]; other site 458233001622 Q-loop/lid; other site 458233001623 ABC transporter signature motif; other site 458233001624 Walker B; other site 458233001625 D-loop; other site 458233001626 H-loop/switch region; other site 458233001627 EDD domain protein, DegV family; Region: DegV; TIGR00762 458233001628 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 458233001629 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458233001630 MarR family; Region: MarR; pfam01047 458233001631 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 458233001632 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 458233001633 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 458233001634 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 458233001635 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 458233001636 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 458233001637 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 458233001638 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 458233001639 putative substrate binding site [chemical binding]; other site 458233001640 putative ATP binding site [chemical binding]; other site 458233001641 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 458233001642 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 458233001643 active site 458233001644 phosphorylation site [posttranslational modification] 458233001645 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 458233001646 active site 458233001647 P-loop; other site 458233001648 phosphorylation site [posttranslational modification] 458233001649 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 458233001650 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 458233001651 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458233001652 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458233001653 Domain of unknown function DUF21; Region: DUF21; pfam01595 458233001654 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 458233001655 Transporter associated domain; Region: CorC_HlyC; pfam03471 458233001656 integral membrane protein; Region: integ_memb_HG; TIGR03954 458233001657 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233001658 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 458233001659 RNA binding surface [nucleotide binding]; other site 458233001660 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 458233001661 probable active site [active] 458233001662 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 458233001663 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 458233001664 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 458233001665 active site 458233001666 catalytic tetrad [active] 458233001667 YwiC-like protein; Region: YwiC; pfam14256 458233001668 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 458233001669 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 458233001670 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 458233001671 active site 458233001672 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 458233001673 Ligand Binding Site [chemical binding]; other site 458233001674 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 458233001675 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458233001676 glutamine binding [chemical binding]; other site 458233001677 catalytic triad [active] 458233001678 aminodeoxychorismate synthase; Provisional; Region: PRK07508 458233001679 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458233001680 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; cl00224 458233001681 substrate-cofactor binding pocket; other site 458233001682 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 458233001683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233001684 catalytic residue [active] 458233001685 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 458233001686 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 458233001687 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00152 458233001688 Sulfatase; Region: Sulfatase; pfam00884 458233001689 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 458233001690 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 458233001691 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233001692 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233001693 ABC transporter; Region: ABC_tran_2; pfam12848 458233001694 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233001695 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 458233001696 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 458233001697 ATP binding site [chemical binding]; other site 458233001698 putative Mg++ binding site [ion binding]; other site 458233001699 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 458233001700 nucleotide binding region [chemical binding]; other site 458233001701 ATP-binding site [chemical binding]; other site 458233001702 RQC domain; Region: RQC; pfam09382 458233001703 HRDC domain; Region: HRDC; pfam00570 458233001704 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 458233001705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233001706 Walker A/P-loop; other site 458233001707 ATP binding site [chemical binding]; other site 458233001708 Q-loop/lid; other site 458233001709 ABC transporter signature motif; other site 458233001710 Walker B; other site 458233001711 D-loop; other site 458233001712 H-loop/switch region; other site 458233001713 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 458233001714 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 458233001715 dimer interface [polypeptide binding]; other site 458233001716 conserved gate region; other site 458233001717 ABC-ATPase subunit interface; other site 458233001718 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 458233001719 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 458233001720 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 458233001721 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 458233001722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233001723 homodimer interface [polypeptide binding]; other site 458233001724 catalytic residue [active] 458233001725 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 458233001726 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 458233001727 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 458233001728 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458233001729 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 458233001730 putative substrate translocation pore; other site 458233001731 POT family; Region: PTR2; cl17359 458233001732 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458233001733 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 458233001734 putative substrate translocation pore; other site 458233001735 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 458233001736 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458233001737 EamA-like transporter family; Region: EamA; cl17759 458233001738 EamA-like transporter family; Region: EamA; pfam00892 458233001739 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 458233001740 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 458233001741 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 458233001742 Class I ribonucleotide reductase; Region: RNR_I; cd01679 458233001743 active site 458233001744 dimer interface [polypeptide binding]; other site 458233001745 catalytic residues [active] 458233001746 effector binding site; other site 458233001747 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 458233001748 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 458233001749 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 458233001750 dimer interface [polypeptide binding]; other site 458233001751 putative radical transfer pathway; other site 458233001752 diiron center [ion binding]; other site 458233001753 tyrosyl radical; other site 458233001754 YtkA-like; Region: YtkA; pfam13115 458233001755 YtkA-like; Region: YtkA; pfam13115 458233001756 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 458233001757 FAD binding domain; Region: FAD_binding_4; pfam01565 458233001758 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 458233001759 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 458233001760 bacillithiol system protein YtxJ; Region: B_thiol_YtxJ; TIGR04019 458233001761 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 458233001762 peptidase T; Region: peptidase-T; TIGR01882 458233001763 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 458233001764 metal binding site [ion binding]; metal-binding site 458233001765 dimer interface [polypeptide binding]; other site 458233001766 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 458233001767 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458233001768 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 458233001769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458233001770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458233001771 metal binding site [ion binding]; metal-binding site 458233001772 active site 458233001773 I-site; other site 458233001774 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233001775 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233001776 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233001777 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233001778 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 458233001779 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 458233001780 Mg++ binding site [ion binding]; other site 458233001781 putative catalytic motif [active] 458233001782 substrate binding site [chemical binding]; other site 458233001783 Uncharacterized conserved protein [Function unknown]; Region: COG1739 458233001784 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 458233001785 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 458233001786 EDD domain protein, DegV family; Region: DegV; TIGR00762 458233001787 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 458233001788 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 458233001789 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 458233001790 ATP binding site [chemical binding]; other site 458233001791 putative Mg++ binding site [ion binding]; other site 458233001792 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 458233001793 nucleotide binding region [chemical binding]; other site 458233001794 ATP-binding site [chemical binding]; other site 458233001795 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 458233001796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233001797 active site 458233001798 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 458233001799 30S subunit binding site; other site 458233001800 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 458233001801 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 458233001802 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 458233001803 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 458233001804 nucleotide binding region [chemical binding]; other site 458233001805 ATP-binding site [chemical binding]; other site 458233001806 SEC-C motif; Region: SEC-C; pfam02810 458233001807 peptide chain release factor 2; Validated; Region: prfB; PRK00578 458233001808 PCRF domain; Region: PCRF; pfam03462 458233001809 RF-1 domain; Region: RF-1; pfam00472 458233001810 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458233001811 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458233001812 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233001813 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233001814 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 458233001815 NlpC/P60 family; Region: NLPC_P60; pfam00877 458233001816 Surface antigen [General function prediction only]; Region: COG3942 458233001817 CHAP domain; Region: CHAP; pfam05257 458233001818 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 458233001819 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 458233001820 catalytic residues [active] 458233001821 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233001822 Zn2+ binding site [ion binding]; other site 458233001823 Mg2+ binding site [ion binding]; other site 458233001824 excinuclease ABC subunit B; Provisional; Region: PRK05298 458233001825 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 458233001826 ATP binding site [chemical binding]; other site 458233001827 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 458233001828 nucleotide binding region [chemical binding]; other site 458233001829 ATP-binding site [chemical binding]; other site 458233001830 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458233001831 UvrB/uvrC motif; Region: UVR; pfam02151 458233001832 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 458233001833 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458233001834 tRNAHis guanylyltransferase; Region: Thg1; pfam04446 458233001835 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458233001836 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 458233001837 HPr kinase/phosphorylase; Provisional; Region: PRK05428 458233001838 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 458233001839 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 458233001840 Hpr binding site; other site 458233001841 active site 458233001842 homohexamer subunit interaction site [polypeptide binding]; other site 458233001843 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 458233001844 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 458233001845 trimer interface [polypeptide binding]; other site 458233001846 active site 458233001847 substrate binding site [chemical binding]; other site 458233001848 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 458233001849 CoA binding site [chemical binding]; other site 458233001850 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 458233001851 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233001852 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233001853 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 458233001854 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 458233001855 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 458233001856 phosphate binding site [ion binding]; other site 458233001857 putative substrate binding pocket [chemical binding]; other site 458233001858 dimer interface [polypeptide binding]; other site 458233001859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 458233001860 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 458233001861 Clp protease; Region: CLP_protease; pfam00574 458233001862 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458233001863 oligomer interface [polypeptide binding]; other site 458233001864 active site residues [active] 458233001865 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 458233001866 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 458233001867 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 458233001868 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 458233001869 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458233001870 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 458233001871 Phosphoglycerate kinase; Region: PGK; pfam00162 458233001872 substrate binding site [chemical binding]; other site 458233001873 hinge regions; other site 458233001874 ADP binding site [chemical binding]; other site 458233001875 catalytic site [active] 458233001876 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 458233001877 triosephosphate isomerase; Provisional; Region: PRK14565 458233001878 substrate binding site [chemical binding]; other site 458233001879 dimer interface [polypeptide binding]; other site 458233001880 catalytic triad [active] 458233001881 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 458233001882 phosphoglyceromutase; Provisional; Region: PRK05434 458233001883 enolase; Provisional; Region: eno; PRK00077 458233001884 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 458233001885 dimer interface [polypeptide binding]; other site 458233001886 metal binding site [ion binding]; metal-binding site 458233001887 substrate binding pocket [chemical binding]; other site 458233001888 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 458233001889 Esterase/lipase [General function prediction only]; Region: COG1647 458233001890 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458233001891 ribonuclease R; Region: RNase_R; TIGR02063 458233001892 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 458233001893 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 458233001894 RNB domain; Region: RNB; pfam00773 458233001895 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 458233001896 RNA binding site [nucleotide binding]; other site 458233001897 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 458233001898 SmpB-tmRNA interface; other site 458233001899 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 458233001900 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 458233001901 Putative Ig domain; Region: He_PIG; pfam05345 458233001902 Putative Ig domain; Region: He_PIG; pfam05345 458233001903 Cadherin repeat-like domain; Region: CA_like; cl15786 458233001904 Ca2+ binding site [ion binding]; other site 458233001905 Putative Ig domain; Region: He_PIG; pfam05345 458233001906 Putative Ig domain; Region: He_PIG; pfam05345 458233001907 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 458233001908 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 458233001909 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 458233001910 active site 458233001911 catalytic residue [active] 458233001912 dimer interface [polypeptide binding]; other site 458233001913 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 458233001914 FMN binding site [chemical binding]; other site 458233001915 dimer interface [polypeptide binding]; other site 458233001916 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 458233001917 catalytic residues [active] 458233001918 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 458233001919 ArsC family; Region: ArsC; pfam03960 458233001920 putative ArsC-like catalytic residues; other site 458233001921 putative TRX-like catalytic residues [active] 458233001922 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 458233001923 lipoyl attachment site [posttranslational modification]; other site 458233001924 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 458233001925 putative active site [active] 458233001926 putative metal binding site [ion binding]; other site 458233001927 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 458233001928 catalytic residues [active] 458233001929 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 458233001930 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 458233001931 Walker A/P-loop; other site 458233001932 ATP binding site [chemical binding]; other site 458233001933 Q-loop/lid; other site 458233001934 ABC transporter signature motif; other site 458233001935 Walker B; other site 458233001936 D-loop; other site 458233001937 H-loop/switch region; other site 458233001938 NIL domain; Region: NIL; pfam09383 458233001939 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 458233001940 ABC-ATPase subunit interface; other site 458233001941 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 458233001942 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 458233001943 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 458233001944 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 458233001945 Walker A/P-loop; other site 458233001946 ATP binding site [chemical binding]; other site 458233001947 Q-loop/lid; other site 458233001948 ABC transporter signature motif; other site 458233001949 Walker B; other site 458233001950 D-loop; other site 458233001951 H-loop/switch region; other site 458233001952 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 458233001953 FeS assembly protein SufD; Region: sufD; TIGR01981 458233001954 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458233001955 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 458233001956 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233001957 catalytic residue [active] 458233001958 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 458233001959 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 458233001960 trimerization site [polypeptide binding]; other site 458233001961 active site 458233001962 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 458233001963 FeS assembly protein SufB; Region: sufB; TIGR01980 458233001964 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 458233001965 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 458233001966 Cl binding site [ion binding]; other site 458233001967 oligomer interface [polypeptide binding]; other site 458233001968 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 458233001969 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 458233001970 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 458233001971 Walker A/P-loop; other site 458233001972 ATP binding site [chemical binding]; other site 458233001973 Q-loop/lid; other site 458233001974 ABC transporter signature motif; other site 458233001975 Walker B; other site 458233001976 D-loop; other site 458233001977 H-loop/switch region; other site 458233001978 Protein of unknown function DUF72; Region: DUF72; pfam01904 458233001979 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458233001980 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 458233001981 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 458233001982 active site 458233001983 metal binding site [ion binding]; metal-binding site 458233001984 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458233001985 lipoyl synthase; Provisional; Region: PRK05481 458233001986 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 458233001987 FeS/SAM binding site; other site 458233001988 Protein of unknown function (DUF1027); Region: DUF1027; pfam06265 458233001989 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458233001990 Beta-lactamase; Region: Beta-lactamase; pfam00144 458233001991 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458233001992 Beta-lactamase; Region: Beta-lactamase; pfam00144 458233001993 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 458233001994 Uncharacterized conserved protein [Function unknown]; Region: COG2445 458233001995 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 458233001996 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 458233001997 active site 458233001998 motif I; other site 458233001999 motif II; other site 458233002000 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 458233002001 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 458233002002 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 458233002003 acyl-activating enzyme (AAE) consensus motif; other site 458233002004 AMP binding site [chemical binding]; other site 458233002005 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 458233002006 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 458233002007 DltD N-terminal region; Region: DltD_N; pfam04915 458233002008 DltD central region; Region: DltD_M; pfam04918 458233002009 DltD C-terminal region; Region: DltD_C; pfam04914 458233002010 Protein of unknown function (DUF1462); Region: DUF1462; pfam07315 458233002011 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233002012 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233002013 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 458233002014 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233002015 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233002016 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 458233002017 nudix motif; other site 458233002018 Putative membrane protein; Region: YuiB; pfam14068 458233002019 Predicted permease [General function prediction only]; Region: COG2056 458233002020 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 458233002021 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 458233002022 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 458233002023 CoenzymeA binding site [chemical binding]; other site 458233002024 subunit interaction site [polypeptide binding]; other site 458233002025 PHB binding site; other site 458233002026 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 458233002027 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 458233002028 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 458233002029 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 458233002030 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 458233002031 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 458233002032 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 458233002033 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 458233002034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 458233002035 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 458233002036 Kinase associated protein B; Region: KapB; pfam08810 458233002037 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 458233002038 active site 458233002039 general stress protein 13; Validated; Region: PRK08059 458233002040 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 458233002041 RNA binding site [nucleotide binding]; other site 458233002042 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 458233002043 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 458233002044 Glutamate binding site [chemical binding]; other site 458233002045 homodimer interface [polypeptide binding]; other site 458233002046 NAD binding site [chemical binding]; other site 458233002047 catalytic residues [active] 458233002048 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 458233002049 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 458233002050 inhibitor-cofactor binding pocket; inhibition site 458233002051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233002052 catalytic residue [active] 458233002053 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 458233002054 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458233002055 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 458233002056 NAD(P) binding site [chemical binding]; other site 458233002057 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 458233002058 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 458233002059 dimer interface [polypeptide binding]; other site 458233002060 active site 458233002061 metal binding site [ion binding]; metal-binding site 458233002062 argininosuccinate lyase; Provisional; Region: PRK00855 458233002063 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 458233002064 active sites [active] 458233002065 tetramer interface [polypeptide binding]; other site 458233002066 argininosuccinate synthase; Provisional; Region: PRK13820 458233002067 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 458233002068 ANP binding site [chemical binding]; other site 458233002069 Substrate Binding Site II [chemical binding]; other site 458233002070 Substrate Binding Site I [chemical binding]; other site 458233002071 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 458233002072 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 458233002073 active site 458233002074 dimer interface [polypeptide binding]; other site 458233002075 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 458233002076 dimer interface [polypeptide binding]; other site 458233002077 active site 458233002078 Uncharacterized conserved protein [Function unknown]; Region: COG0398 458233002079 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 458233002080 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458233002081 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 458233002082 Catalytic site [active] 458233002083 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 458233002084 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 458233002085 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 458233002086 Part of AAA domain; Region: AAA_19; pfam13245 458233002087 Family description; Region: UvrD_C_2; pfam13538 458233002088 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 458233002089 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 458233002090 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 458233002091 hypothetical protein; Provisional; Region: PRK13673 458233002092 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 458233002093 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 458233002094 coenzyme A disulfide reductase; Provisional; Region: PRK13512 458233002095 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233002096 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233002097 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233002098 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 458233002099 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233002100 active site 458233002101 motif I; other site 458233002102 motif II; other site 458233002103 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 458233002104 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 458233002105 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 458233002106 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458233002107 ligand binding site [chemical binding]; other site 458233002108 flexible hinge region; other site 458233002109 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 458233002110 putative switch regulator; other site 458233002111 non-specific DNA interactions [nucleotide binding]; other site 458233002112 DNA binding site [nucleotide binding] 458233002113 sequence specific DNA binding site [nucleotide binding]; other site 458233002114 putative cAMP binding site [chemical binding]; other site 458233002115 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 458233002116 Clp amino terminal domain; Region: Clp_N; pfam02861 458233002117 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 458233002118 Walker A motif; other site 458233002119 ATP binding site [chemical binding]; other site 458233002120 Walker B motif; other site 458233002121 arginine finger; other site 458233002122 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 458233002123 Walker A motif; other site 458233002124 ATP binding site [chemical binding]; other site 458233002125 Walker B motif; other site 458233002126 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 458233002127 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233002128 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 458233002129 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 458233002130 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 458233002131 dimer interface [polypeptide binding]; other site 458233002132 active site 458233002133 CoA binding pocket [chemical binding]; other site 458233002134 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 458233002135 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 458233002136 dimer interface [polypeptide binding]; other site 458233002137 active site 458233002138 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 458233002139 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 458233002140 dimer interface [polypeptide binding]; other site 458233002141 conserved gate region; other site 458233002142 putative PBP binding loops; other site 458233002143 ABC-ATPase subunit interface; other site 458233002144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 458233002145 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 458233002146 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 458233002147 dimer interface [polypeptide binding]; other site 458233002148 conserved gate region; other site 458233002149 putative PBP binding loops; other site 458233002150 ABC-ATPase subunit interface; other site 458233002151 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 458233002152 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 458233002153 Walker A/P-loop; other site 458233002154 ATP binding site [chemical binding]; other site 458233002155 Q-loop/lid; other site 458233002156 ABC transporter signature motif; other site 458233002157 Walker B; other site 458233002158 D-loop; other site 458233002159 H-loop/switch region; other site 458233002160 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458233002161 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 458233002162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 458233002163 Walker A/P-loop; other site 458233002164 ATP binding site [chemical binding]; other site 458233002165 Q-loop/lid; other site 458233002166 ABC transporter signature motif; other site 458233002167 Walker B; other site 458233002168 D-loop; other site 458233002169 H-loop/switch region; other site 458233002170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 458233002171 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 458233002172 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 458233002173 peptide binding site [polypeptide binding]; other site 458233002174 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 458233002175 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 458233002176 active site 458233002177 HIGH motif; other site 458233002178 dimer interface [polypeptide binding]; other site 458233002179 KMSKS motif; other site 458233002180 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 458233002181 ArsC family; Region: ArsC; pfam03960 458233002182 putative catalytic residues [active] 458233002183 thiol/disulfide switch; other site 458233002184 adaptor protein; Provisional; Region: PRK02315 458233002185 Competence protein CoiA-like family; Region: CoiA; cl11541 458233002186 potential frameshift: common BLAST hit: gi|70726958|ref|YP_253872.1| thimet oligopeptidase 458233002187 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 458233002188 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233002189 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233002190 Zn binding site [ion binding]; other site 458233002191 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 458233002192 Thioredoxin; Region: Thioredoxin_5; pfam13743 458233002193 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 458233002194 apolar tunnel; other site 458233002195 heme binding site [chemical binding]; other site 458233002196 dimerization interface [polypeptide binding]; other site 458233002197 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 458233002198 putative active site [active] 458233002199 putative metal binding residues [ion binding]; other site 458233002200 signature motif; other site 458233002201 putative triphosphate binding site [ion binding]; other site 458233002202 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233002203 synthetase active site [active] 458233002204 NTP binding site [chemical binding]; other site 458233002205 metal binding site [ion binding]; metal-binding site 458233002206 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 458233002207 ATP-NAD kinase; Region: NAD_kinase; pfam01513 458233002208 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458233002209 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458233002210 active site 458233002211 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458233002212 MgtE intracellular N domain; Region: MgtE_N; smart00924 458233002213 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 458233002214 Divalent cation transporter; Region: MgtE; pfam01769 458233002215 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 458233002216 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458233002217 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458233002218 TrkA-N domain; Region: TrkA_N; pfam02254 458233002219 TrkA-C domain; Region: TrkA_C; pfam02080 458233002220 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08594 458233002221 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 458233002222 NAD binding site [chemical binding]; other site 458233002223 homotetramer interface [polypeptide binding]; other site 458233002224 homodimer interface [polypeptide binding]; other site 458233002225 substrate binding site [chemical binding]; other site 458233002226 active site 458233002227 hypothetical protein; Provisional; Region: PRK13679 458233002228 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 458233002229 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 458233002230 Putative esterase; Region: Esterase; pfam00756 458233002231 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458233002232 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458233002233 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233002234 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 458233002235 putative substrate translocation pore; other site 458233002236 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 458233002237 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 458233002238 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 458233002239 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 458233002240 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233002241 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233002242 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233002243 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 458233002244 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 458233002245 G1 box; other site 458233002246 putative GEF interaction site [polypeptide binding]; other site 458233002247 GTP/Mg2+ binding site [chemical binding]; other site 458233002248 Switch I region; other site 458233002249 G2 box; other site 458233002250 G3 box; other site 458233002251 Switch II region; other site 458233002252 G4 box; other site 458233002253 G5 box; other site 458233002254 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 458233002255 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 458233002256 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458233002257 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 458233002258 protein binding site [polypeptide binding]; other site 458233002259 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 458233002260 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458233002261 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 458233002262 dimer interface [polypeptide binding]; other site 458233002263 phosphorylation site [posttranslational modification] 458233002264 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 458233002265 ATP binding site [chemical binding]; other site 458233002266 Mg2+ binding site [ion binding]; other site 458233002267 G-X-G motif; other site 458233002268 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458233002269 active site 458233002270 metal binding site [ion binding]; metal-binding site 458233002271 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458233002272 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458233002273 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; cl17315 458233002274 DNA binding residues [nucleotide binding] 458233002275 ComK protein; Region: ComK; cl11560 458233002276 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458233002277 metal binding site [ion binding]; metal-binding site 458233002278 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 458233002279 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458233002280 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 458233002281 amidase catalytic site [active] 458233002282 Zn binding residues [ion binding]; other site 458233002283 substrate binding site [chemical binding]; other site 458233002284 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 458233002285 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 458233002286 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 458233002287 Transcriptional regulator [Transcription]; Region: LytR; COG1316 458233002288 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 458233002289 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 458233002290 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 458233002291 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 458233002292 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 458233002293 active site 458233002294 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458233002295 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458233002296 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 458233002297 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 458233002298 active site 458233002299 tetramer interface; other site 458233002300 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 458233002301 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 458233002302 Walker A/P-loop; other site 458233002303 ATP binding site [chemical binding]; other site 458233002304 Q-loop/lid; other site 458233002305 ABC transporter signature motif; other site 458233002306 Walker B; other site 458233002307 D-loop; other site 458233002308 H-loop/switch region; other site 458233002309 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233002310 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 458233002311 active site 458233002312 nucleotide binding site [chemical binding]; other site 458233002313 HIGH motif; other site 458233002314 KMSKS motif; other site 458233002315 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002316 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 458233002317 putative ADP-binding pocket [chemical binding]; other site 458233002318 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458233002319 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 458233002320 active site 458233002321 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458233002322 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233002323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002324 NAD(P) binding site [chemical binding]; other site 458233002325 active site 458233002326 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233002327 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 458233002328 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233002329 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458233002330 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 458233002331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002332 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 458233002333 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 458233002334 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 458233002335 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002336 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 458233002337 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 458233002338 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 458233002339 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 458233002340 Walker A/P-loop; other site 458233002341 ATP binding site [chemical binding]; other site 458233002342 Q-loop/lid; other site 458233002343 ABC transporter signature motif; other site 458233002344 Walker B; other site 458233002345 D-loop; other site 458233002346 H-loop/switch region; other site 458233002347 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 458233002348 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002349 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458233002350 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 458233002351 active site 458233002352 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 458233002353 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 458233002354 Chain length determinant protein; Region: Wzz; cl15801 458233002355 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 458233002356 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 458233002357 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 458233002358 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 458233002359 NAD(P) binding site [chemical binding]; other site 458233002360 homodimer interface [polypeptide binding]; other site 458233002361 substrate binding site [chemical binding]; other site 458233002362 active site 458233002363 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 458233002364 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 458233002365 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 458233002366 trimer interface [polypeptide binding]; other site 458233002367 active site 458233002368 substrate binding site [chemical binding]; other site 458233002369 CoA binding site [chemical binding]; other site 458233002370 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233002371 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 458233002372 putative NAD(P) binding site [chemical binding]; other site 458233002373 active site 458233002374 putative substrate binding site [chemical binding]; other site 458233002375 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 458233002376 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233002377 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458233002378 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 458233002379 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 458233002380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002381 putative ADP-binding pocket [chemical binding]; other site 458233002382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002383 NADH(P)-binding; Region: NAD_binding_10; pfam13460 458233002384 NAD(P) binding site [chemical binding]; other site 458233002385 active site 458233002386 Bacterial sugar transferase; Region: Bac_transf; pfam02397 458233002387 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 458233002388 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 458233002389 DXD motif; other site 458233002390 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 458233002391 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 458233002392 intercellular adhesin biosynthesis polysaccharide N-deacetylase; Region: PIA_icaB; TIGR03933 458233002393 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 458233002394 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458233002395 Transcriptional regulator; Region: Rrf2; cl17282 458233002396 Rrf2 family protein; Region: rrf2_super; TIGR00738 458233002397 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 458233002398 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 458233002399 heme-binding site [chemical binding]; other site 458233002400 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 458233002401 FAD binding pocket [chemical binding]; other site 458233002402 FAD binding motif [chemical binding]; other site 458233002403 phosphate binding motif [ion binding]; other site 458233002404 beta-alpha-beta structure motif; other site 458233002405 NAD binding pocket [chemical binding]; other site 458233002406 Heme binding pocket [chemical binding]; other site 458233002407 Nuclease-related domain; Region: NERD; pfam08378 458233002408 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 458233002409 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 458233002410 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 458233002411 homodimer interface [polypeptide binding]; other site 458233002412 NADP binding site [chemical binding]; other site 458233002413 substrate binding site [chemical binding]; other site 458233002414 AIR carboxylase; Region: AIRC; cl00310 458233002415 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 458233002416 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 458233002417 NAD binding site [chemical binding]; other site 458233002418 ATP-grasp domain; Region: ATP-grasp; pfam02222 458233002419 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 458233002420 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 458233002421 ATP binding site [chemical binding]; other site 458233002422 active site 458233002423 substrate binding site [chemical binding]; other site 458233002424 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]; Region: PurS; COG1828 458233002425 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 458233002426 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 458233002427 putative active site [active] 458233002428 catalytic triad [active] 458233002429 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 458233002430 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 458233002431 dimerization interface [polypeptide binding]; other site 458233002432 ATP binding site [chemical binding]; other site 458233002433 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 458233002434 dimerization interface [polypeptide binding]; other site 458233002435 ATP binding site [chemical binding]; other site 458233002436 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 458233002437 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 458233002438 active site 458233002439 tetramer interface [polypeptide binding]; other site 458233002440 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233002441 active site 458233002442 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 458233002443 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 458233002444 dimerization interface [polypeptide binding]; other site 458233002445 putative ATP binding site [chemical binding]; other site 458233002446 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 458233002447 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 458233002448 active site 458233002449 substrate binding site [chemical binding]; other site 458233002450 cosubstrate binding site; other site 458233002451 catalytic site [active] 458233002452 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 458233002453 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 458233002454 purine monophosphate binding site [chemical binding]; other site 458233002455 dimer interface [polypeptide binding]; other site 458233002456 putative catalytic residues [active] 458233002457 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 458233002458 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 458233002459 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 458233002460 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 458233002461 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 458233002462 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 458233002463 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 458233002464 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 458233002465 putative RNA binding site [nucleotide binding]; other site 458233002466 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 458233002467 S-adenosylmethionine binding site [chemical binding]; other site 458233002468 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 458233002469 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 458233002470 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458233002471 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 458233002472 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 458233002473 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 458233002474 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233002475 putative active site [active] 458233002476 putative metal binding site [ion binding]; other site 458233002477 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 458233002478 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 458233002479 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458233002480 TrkA-N domain; Region: TrkA_N; pfam02254 458233002481 TrkA-C domain; Region: TrkA_C; pfam02080 458233002482 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 458233002483 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 458233002484 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458233002485 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 458233002486 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 458233002487 active site 458233002488 motif I; other site 458233002489 motif II; other site 458233002490 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458233002491 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 458233002492 active site 458233002493 catalytic residues [active] 458233002494 metal binding site [ion binding]; metal-binding site 458233002495 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 458233002496 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 458233002497 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 458233002498 TPP-binding site [chemical binding]; other site 458233002499 heterodimer interface [polypeptide binding]; other site 458233002500 tetramer interface [polypeptide binding]; other site 458233002501 phosphorylation loop region [posttranslational modification] 458233002502 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 458233002503 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 458233002504 alpha subunit interface [polypeptide binding]; other site 458233002505 TPP binding site [chemical binding]; other site 458233002506 heterodimer interface [polypeptide binding]; other site 458233002507 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233002508 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 458233002509 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 458233002510 E3 interaction surface; other site 458233002511 lipoyl attachment site [posttranslational modification]; other site 458233002512 e3 binding domain; Region: E3_binding; pfam02817 458233002513 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 458233002514 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 458233002515 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458233002516 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233002517 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233002518 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 458233002519 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 458233002520 non-specific DNA binding site [nucleotide binding]; other site 458233002521 salt bridge; other site 458233002522 sequence-specific DNA binding site [nucleotide binding]; other site 458233002523 Cupin domain; Region: Cupin_2; pfam07883 458233002524 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458233002525 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 458233002526 Walker A/P-loop; other site 458233002527 ATP binding site [chemical binding]; other site 458233002528 Q-loop/lid; other site 458233002529 ABC transporter signature motif; other site 458233002530 Walker B; other site 458233002531 D-loop; other site 458233002532 H-loop/switch region; other site 458233002533 TOBE domain; Region: TOBE_2; pfam08402 458233002534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 458233002535 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 458233002536 putative PBP binding loops; other site 458233002537 dimer interface [polypeptide binding]; other site 458233002538 ABC-ATPase subunit interface; other site 458233002539 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233002540 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 458233002541 dimer interface [polypeptide binding]; other site 458233002542 conserved gate region; other site 458233002543 putative PBP binding loops; other site 458233002544 ABC-ATPase subunit interface; other site 458233002545 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 458233002546 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 458233002547 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 458233002548 Uncharacterized conserved protein [Function unknown]; Region: COG2427 458233002549 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 458233002550 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 458233002551 catalytic loop [active] 458233002552 iron binding site [ion binding]; other site 458233002553 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 458233002554 4Fe-4S binding domain; Region: Fer4; pfam00037 458233002555 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 458233002556 [4Fe-4S] binding site [ion binding]; other site 458233002557 molybdopterin cofactor binding site; other site 458233002558 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 458233002559 molybdopterin cofactor binding site; other site 458233002560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4493 458233002561 Protein of unknown function (DUF1054); Region: DUF1054; pfam06335 458233002562 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 458233002563 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 458233002564 active site 458233002565 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 458233002566 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 458233002567 G1 box; other site 458233002568 putative GEF interaction site [polypeptide binding]; other site 458233002569 GTP/Mg2+ binding site [chemical binding]; other site 458233002570 Switch I region; other site 458233002571 G2 box; other site 458233002572 G3 box; other site 458233002573 Switch II region; other site 458233002574 G4 box; other site 458233002575 G5 box; other site 458233002576 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 458233002577 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 458233002578 YlaH-like protein; Region: YlaH; pfam14036 458233002579 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 458233002580 pyruvate carboxylase; Reviewed; Region: PRK12999 458233002581 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002582 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 458233002583 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 458233002584 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 458233002585 active site 458233002586 catalytic residues [active] 458233002587 metal binding site [ion binding]; metal-binding site 458233002588 homodimer binding site [polypeptide binding]; other site 458233002589 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 458233002590 carboxyltransferase (CT) interaction site; other site 458233002591 biotinylation site [posttranslational modification]; other site 458233002592 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 458233002593 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 458233002594 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 458233002595 UbiA prenyltransferase family; Region: UbiA; pfam01040 458233002596 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 458233002597 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 458233002598 Cytochrome c; Region: Cytochrom_C; cl11414 458233002599 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 458233002600 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 458233002601 D-pathway; other site 458233002602 Putative ubiquinol binding site [chemical binding]; other site 458233002603 Low-spin heme (heme b) binding site [chemical binding]; other site 458233002604 Putative water exit pathway; other site 458233002605 Binuclear center (heme o3/CuB) [ion binding]; other site 458233002606 K-pathway; other site 458233002607 Putative proton exit pathway; other site 458233002608 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 458233002609 Subunit I/III interface [polypeptide binding]; other site 458233002610 Subunit III/IV interface [polypeptide binding]; other site 458233002611 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 458233002612 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 458233002613 Protein of unknown function (DUF420); Region: DUF420; pfam04238 458233002614 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 458233002615 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458233002616 YugN-like family; Region: YugN; pfam08868 458233002617 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 458233002618 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 458233002619 Regulatory protein involved in competence development and sporulation [Replication, recombination and repair; Signal transduction mechanisms]; Region: COG3679 458233002620 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458233002621 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 458233002622 S-adenosylmethionine binding site [chemical binding]; other site 458233002623 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458233002624 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 458233002625 putative active site [active] 458233002626 catalytic site [active] 458233002627 putative metal binding site [ion binding]; other site 458233002628 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 458233002629 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 458233002630 S-adenosylmethionine binding site [chemical binding]; other site 458233002631 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 458233002632 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 458233002633 active site 458233002634 (T/H)XGH motif; other site 458233002635 hypothetical protein; Provisional; Region: PRK13670 458233002636 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 458233002637 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 458233002638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 458233002639 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 458233002640 cell division protein MraZ; Reviewed; Region: PRK00326 458233002641 MraZ protein; Region: MraZ; pfam02381 458233002642 MraZ protein; Region: MraZ; pfam02381 458233002643 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 458233002644 MraW methylase family; Region: Methyltransf_5; pfam01795 458233002645 Cell division protein FtsL; Region: FtsL; cl11433 458233002646 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 458233002647 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233002648 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 458233002649 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 458233002650 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 458233002651 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 458233002652 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 458233002653 Mg++ binding site [ion binding]; other site 458233002654 putative catalytic motif [active] 458233002655 putative substrate binding site [chemical binding]; other site 458233002656 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 458233002657 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 458233002658 NAD(P) binding pocket [chemical binding]; other site 458233002659 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233002660 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233002661 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 458233002662 Cell division protein FtsQ; Region: FtsQ; pfam03799 458233002663 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 458233002664 Cell division protein FtsA; Region: FtsA; smart00842 458233002665 Cell division protein FtsA; Region: FtsA; pfam14450 458233002666 cell division protein FtsZ; Validated; Region: PRK09330 458233002667 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 458233002668 nucleotide binding site [chemical binding]; other site 458233002669 SulA interaction site; other site 458233002670 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 458233002671 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 458233002672 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 458233002673 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233002674 catalytic residue [active] 458233002675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 458233002676 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 458233002677 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 458233002678 RNA binding surface [nucleotide binding]; other site 458233002679 DivIVA protein; Region: DivIVA; pfam05103 458233002680 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 458233002681 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233002682 active site 458233002683 HIGH motif; other site 458233002684 nucleotide binding site [chemical binding]; other site 458233002685 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458233002686 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 458233002687 active site 458233002688 KMSKS motif; other site 458233002689 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 458233002690 tRNA binding surface [nucleotide binding]; other site 458233002691 anticodon binding site; other site 458233002692 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458233002693 potential protein location (hypothetical protein) that overlaps protein (Ile-tRNA synthetase) 458233002694 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 458233002695 lipoprotein signal peptidase; Provisional; Region: PRK14787 458233002696 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 458233002697 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 458233002698 RNA binding surface [nucleotide binding]; other site 458233002699 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458233002700 active site 458233002701 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 458233002702 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233002703 active site 458233002704 uracil-xanthine permease; Region: ncs2; TIGR00801 458233002705 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 458233002706 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458233002707 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458233002708 dihydroorotase; Validated; Region: pyrC; PRK09357 458233002709 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 458233002710 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 458233002711 active site 458233002712 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 458233002713 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 458233002714 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 458233002715 catalytic site [active] 458233002716 subunit interface [polypeptide binding]; other site 458233002717 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 458233002718 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002719 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 458233002720 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 458233002721 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002722 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458233002723 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 458233002724 IMP binding site; other site 458233002725 dimer interface [polypeptide binding]; other site 458233002726 interdomain contacts; other site 458233002727 partial ornithine binding site; other site 458233002728 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 458233002729 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 458233002730 FAD binding pocket [chemical binding]; other site 458233002731 FAD binding motif [chemical binding]; other site 458233002732 phosphate binding motif [ion binding]; other site 458233002733 beta-alpha-beta structure motif; other site 458233002734 NAD binding pocket [chemical binding]; other site 458233002735 Iron coordination center [ion binding]; other site 458233002736 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 458233002737 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 458233002738 heterodimer interface [polypeptide binding]; other site 458233002739 active site 458233002740 FMN binding site [chemical binding]; other site 458233002741 homodimer interface [polypeptide binding]; other site 458233002742 substrate binding site [chemical binding]; other site 458233002743 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 458233002744 active site 458233002745 dimer interface [polypeptide binding]; other site 458233002746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233002747 active site 458233002748 potential frameshift: common BLAST hit: gi|57865456|ref|YP_189611.1| phosphoglucomutase/phosphomannomutase family protein 458233002749 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 458233002750 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 458233002751 active site 458233002752 substrate binding site [chemical binding]; other site 458233002753 metal binding site [ion binding]; metal-binding site 458233002754 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 458233002755 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 458233002756 pullulanase, type I; Region: pulA_typeI; TIGR02104 458233002757 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 458233002758 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 458233002759 Ca binding site [ion binding]; other site 458233002760 active site 458233002761 catalytic site [active] 458233002762 glycogen branching enzyme; Provisional; Region: PRK12313 458233002763 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 458233002764 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 458233002765 active site 458233002766 catalytic site [active] 458233002767 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 458233002768 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 458233002769 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 458233002770 ligand binding site; other site 458233002771 oligomer interface; other site 458233002772 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 458233002773 dimer interface [polypeptide binding]; other site 458233002774 N-terminal domain interface [polypeptide binding]; other site 458233002775 sulfate 1 binding site; other site 458233002776 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 458233002777 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 458233002778 ligand binding site; other site 458233002779 oligomer interface; other site 458233002780 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 458233002781 dimer interface [polypeptide binding]; other site 458233002782 N-terminal domain interface [polypeptide binding]; other site 458233002783 sulfate 1 binding site; other site 458233002784 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 458233002785 glycogen synthase; Provisional; Region: glgA; PRK00654 458233002786 ADP-binding pocket [chemical binding]; other site 458233002787 homodimer interface [polypeptide binding]; other site 458233002788 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 458233002789 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 458233002790 active site pocket [active] 458233002791 Putative transcription activator [Transcription]; Region: TenA; COG0819 458233002792 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 458233002793 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 458233002794 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458233002795 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 458233002796 Catalytic site [active] 458233002797 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 458233002798 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 458233002799 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 458233002800 dimer interface [polypeptide binding]; other site 458233002801 active site 458233002802 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 458233002803 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 458233002804 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458233002805 Walker A motif; other site 458233002806 ATP binding site [chemical binding]; other site 458233002807 Walker B motif; other site 458233002808 arginine finger; other site 458233002809 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 458233002810 Walker A motif; other site 458233002811 ATP binding site [chemical binding]; other site 458233002812 Walker B motif; other site 458233002813 arginine finger; other site 458233002814 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 458233002815 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 458233002816 Domain of unknown function (DUF814); Region: DUF814; pfam05670 458233002817 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 458233002818 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 458233002819 catalytic site [active] 458233002820 G-X2-G-X-G-K; other site 458233002821 Flavoprotein; Region: Flavoprotein; pfam02441 458233002822 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 458233002823 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 458233002824 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 458233002825 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 458233002826 ATP binding site [chemical binding]; other site 458233002827 putative Mg++ binding site [ion binding]; other site 458233002828 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 458233002829 ATP-binding site [chemical binding]; other site 458233002830 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 458233002831 active site 458233002832 catalytic residues [active] 458233002833 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 458233002834 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 458233002835 putative active site [active] 458233002836 substrate binding site [chemical binding]; other site 458233002837 putative cosubstrate binding site; other site 458233002838 catalytic site [active] 458233002839 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 458233002840 substrate binding site [chemical binding]; other site 458233002841 16S rRNA methyltransferase B; Provisional; Region: PRK14902 458233002842 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 458233002843 putative RNA binding site [nucleotide binding]; other site 458233002844 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 458233002845 S-adenosylmethionine binding site [chemical binding]; other site 458233002846 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 458233002847 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 458233002848 FeS/SAM binding site; other site 458233002849 Protein phosphatase 2C; Region: PP2C; pfam00481 458233002850 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 458233002851 active site 458233002852 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458233002853 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 458233002854 active site 458233002855 ATP binding site [chemical binding]; other site 458233002856 substrate binding site [chemical binding]; other site 458233002857 activation loop (A-loop); other site 458233002858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 458233002859 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 458233002860 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 458233002861 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 458233002862 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458233002863 Active site serine [active] 458233002864 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 458233002865 Cytochrome P450; Region: p450; cl12078 458233002866 GTPase RsgA; Reviewed; Region: PRK00098 458233002867 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 458233002868 RNA binding site [nucleotide binding]; other site 458233002869 homodimer interface [polypeptide binding]; other site 458233002870 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 458233002871 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458233002872 GTP/Mg2+ binding site [chemical binding]; other site 458233002873 G4 box; other site 458233002874 G5 box; other site 458233002875 G1 box; other site 458233002876 Switch I region; other site 458233002877 G2 box; other site 458233002878 G3 box; other site 458233002879 Switch II region; other site 458233002880 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 458233002881 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 458233002882 substrate binding site [chemical binding]; other site 458233002883 hexamer interface [polypeptide binding]; other site 458233002884 metal binding site [ion binding]; metal-binding site 458233002885 Thiamine pyrophosphokinase; Region: TPK; cd07995 458233002886 active site 458233002887 dimerization interface [polypeptide binding]; other site 458233002888 thiamine binding site [chemical binding]; other site 458233002889 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 458233002890 DAK2 domain; Region: Dak2; pfam02734 458233002891 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 458233002892 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458233002893 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 458233002894 putative L-serine binding site [chemical binding]; other site 458233002895 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458233002896 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 458233002897 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 458233002898 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 458233002899 generic binding surface II; other site 458233002900 ssDNA binding site; other site 458233002901 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 458233002902 ATP binding site [chemical binding]; other site 458233002903 putative Mg++ binding site [ion binding]; other site 458233002904 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 458233002905 nucleotide binding region [chemical binding]; other site 458233002906 ATP-binding site [chemical binding]; other site 458233002907 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 458233002908 active site 458233002909 catalytic site [active] 458233002910 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 458233002911 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 458233002912 active site 2 [active] 458233002913 active site 1 [active] 458233002914 putative phosphate acyltransferase; Provisional; Region: PRK05331 458233002915 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 458233002916 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458233002917 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458233002918 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 458233002919 NAD(P) binding site [chemical binding]; other site 458233002920 homotetramer interface [polypeptide binding]; other site 458233002921 homodimer interface [polypeptide binding]; other site 458233002922 active site 458233002923 ribonuclease III; Reviewed; Region: rnc; PRK00102 458233002924 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 458233002925 dimerization interface [polypeptide binding]; other site 458233002926 active site 458233002927 metal binding site [ion binding]; metal-binding site 458233002928 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 458233002929 dsRNA binding site [nucleotide binding]; other site 458233002930 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458233002931 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 458233002932 Walker A/P-loop; other site 458233002933 ATP binding site [chemical binding]; other site 458233002934 Q-loop/lid; other site 458233002935 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 458233002936 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 458233002937 ABC transporter signature motif; other site 458233002938 Walker B; other site 458233002939 D-loop; other site 458233002940 H-loop/switch region; other site 458233002941 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 458233002942 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 458233002943 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 458233002944 P loop; other site 458233002945 GTP binding site [chemical binding]; other site 458233002946 putative DNA-binding protein; Validated; Region: PRK00118 458233002947 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 458233002948 signal recognition particle protein; Provisional; Region: PRK10867 458233002949 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 458233002950 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 458233002951 P loop; other site 458233002952 GTP binding site [chemical binding]; other site 458233002953 Signal peptide binding domain; Region: SRP_SPB; pfam02978 458233002954 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 458233002955 RimM N-terminal domain; Region: RimM; pfam01782 458233002956 PRC-barrel domain; Region: PRC; pfam05239 458233002957 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 458233002958 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 458233002959 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 458233002960 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 458233002961 Predicted membrane protein [Function unknown]; Region: COG2246 458233002962 GtrA-like protein; Region: GtrA; pfam04138 458233002963 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 458233002964 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 458233002965 Ligand binding site; other site 458233002966 Putative Catalytic site; other site 458233002967 DXD motif; other site 458233002968 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 458233002969 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 458233002970 GTP/Mg2+ binding site [chemical binding]; other site 458233002971 G4 box; other site 458233002972 G5 box; other site 458233002973 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 458233002974 G1 box; other site 458233002975 G1 box; other site 458233002976 GTP/Mg2+ binding site [chemical binding]; other site 458233002977 Switch I region; other site 458233002978 G2 box; other site 458233002979 G2 box; other site 458233002980 Switch I region; other site 458233002981 G3 box; other site 458233002982 G3 box; other site 458233002983 Switch II region; other site 458233002984 Switch II region; other site 458233002985 G4 box; other site 458233002986 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 458233002987 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233002988 active site 458233002989 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 458233002990 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 458233002991 CoA-ligase; Region: Ligase_CoA; pfam00549 458233002992 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 458233002993 CoA binding domain; Region: CoA_binding; pfam02629 458233002994 CoA-ligase; Region: Ligase_CoA; pfam00549 458233002995 DNA protecting protein DprA; Region: dprA; TIGR00732 458233002996 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 458233002997 DNA topoisomerase I; Validated; Region: PRK05582 458233002998 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 458233002999 active site 458233003000 interdomain interaction site; other site 458233003001 putative metal-binding site [ion binding]; other site 458233003002 nucleotide binding site [chemical binding]; other site 458233003003 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 458233003004 domain I; other site 458233003005 DNA binding groove [nucleotide binding] 458233003006 phosphate binding site [ion binding]; other site 458233003007 domain II; other site 458233003008 domain III; other site 458233003009 nucleotide binding site [chemical binding]; other site 458233003010 catalytic site [active] 458233003011 domain IV; other site 458233003012 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458233003013 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458233003014 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 458233003015 Glucose inhibited division protein A; Region: GIDA; pfam01134 458233003016 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 458233003017 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 458233003018 active site 458233003019 DNA binding site [nucleotide binding] 458233003020 Int/Topo IB signature motif; other site 458233003021 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 458233003022 active site 458233003023 HslU subunit interaction site [polypeptide binding]; other site 458233003024 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 458233003025 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 458233003026 Walker A motif; other site 458233003027 ATP binding site [chemical binding]; other site 458233003028 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 458233003029 Walker B motif; other site 458233003030 arginine finger; other site 458233003031 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 458233003032 transcriptional repressor CodY; Validated; Region: PRK04158 458233003033 CodY GAF-like domain; Region: CodY; pfam06018 458233003034 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 458233003035 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 458233003036 rRNA interaction site [nucleotide binding]; other site 458233003037 S8 interaction site; other site 458233003038 putative laminin-1 binding site; other site 458233003039 elongation factor Ts; Provisional; Region: tsf; PRK09377 458233003040 UBA/TS-N domain; Region: UBA; pfam00627 458233003041 Elongation factor TS; Region: EF_TS; pfam00889 458233003042 Elongation factor TS; Region: EF_TS; pfam00889 458233003043 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 458233003044 putative nucleotide binding site [chemical binding]; other site 458233003045 uridine monophosphate binding site [chemical binding]; other site 458233003046 homohexameric interface [polypeptide binding]; other site 458233003047 ribosome recycling factor; Reviewed; Region: frr; PRK00083 458233003048 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 458233003049 hinge region; other site 458233003050 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 458233003051 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 458233003052 catalytic residue [active] 458233003053 putative FPP diphosphate binding site; other site 458233003054 putative FPP binding hydrophobic cleft; other site 458233003055 dimer interface [polypeptide binding]; other site 458233003056 putative IPP diphosphate binding site; other site 458233003057 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 458233003058 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 458233003059 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 458233003060 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 458233003061 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 458233003062 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 458233003063 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 458233003064 RIP metalloprotease RseP; Region: TIGR00054 458233003065 active site 458233003066 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 458233003067 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 458233003068 protein binding site [polypeptide binding]; other site 458233003069 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 458233003070 putative substrate binding region [chemical binding]; other site 458233003071 prolyl-tRNA synthetase; Provisional; Region: PRK09194 458233003072 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_prok; cd00779 458233003073 dimer interface [polypeptide binding]; other site 458233003074 motif 1; other site 458233003075 active site 458233003076 motif 2; other site 458233003077 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 458233003078 putative deacylase active site [active] 458233003079 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 458233003080 active site 458233003081 motif 3; other site 458233003082 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 458233003083 anticodon binding site; other site 458233003084 DNA polymerase III PolC; Validated; Region: polC; PRK00448 458233003085 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 458233003086 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 458233003087 generic binding surface II; other site 458233003088 generic binding surface I; other site 458233003089 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 458233003090 active site 458233003091 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458233003092 active site 458233003093 catalytic site [active] 458233003094 substrate binding site [chemical binding]; other site 458233003095 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 458233003096 ribosome maturation protein RimP; Reviewed; Region: PRK00092 458233003097 Sm and related proteins; Region: Sm_like; cl00259 458233003098 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 458233003099 putative oligomer interface [polypeptide binding]; other site 458233003100 putative RNA binding site [nucleotide binding]; other site 458233003101 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 458233003102 NusA N-terminal domain; Region: NusA_N; pfam08529 458233003103 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 458233003104 RNA binding site [nucleotide binding]; other site 458233003105 homodimer interface [polypeptide binding]; other site 458233003106 NusA-like KH domain; Region: KH_5; pfam13184 458233003107 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 458233003108 G-X-X-G motif; other site 458233003109 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 458233003110 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458233003111 translation initiation factor IF-2; Region: IF-2; TIGR00487 458233003112 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458233003113 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 458233003114 G1 box; other site 458233003115 putative GEF interaction site [polypeptide binding]; other site 458233003116 GTP/Mg2+ binding site [chemical binding]; other site 458233003117 Switch I region; other site 458233003118 G2 box; other site 458233003119 G3 box; other site 458233003120 Switch II region; other site 458233003121 G4 box; other site 458233003122 G5 box; other site 458233003123 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 458233003124 Translation-initiation factor 2; Region: IF-2; pfam11987 458233003125 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 458233003126 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 458233003127 Phage integrase family; Region: Phage_integrase; pfam00589 458233003128 active site 458233003129 DNA binding site [nucleotide binding] 458233003130 Int/Topo IB signature motif; other site 458233003131 Helix-turn-helix domain; Region: HTH_38; pfam13936 458233003132 DNA-binding interface [nucleotide binding]; DNA binding site 458233003133 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233003134 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003135 Coenzyme A binding pocket [chemical binding]; other site 458233003136 threonine dehydratase; Validated; Region: PRK08639 458233003137 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 458233003138 tetramer interface [polypeptide binding]; other site 458233003139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233003140 catalytic residue [active] 458233003141 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458233003142 ketol-acid reductoisomerase; Provisional; Region: PRK05479 458233003143 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 458233003144 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458233003145 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 458233003146 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458233003147 PYR/PP interface [polypeptide binding]; other site 458233003148 dimer interface [polypeptide binding]; other site 458233003149 TPP binding site [chemical binding]; other site 458233003150 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233003151 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 458233003152 TPP-binding site [chemical binding]; other site 458233003153 dimer interface [polypeptide binding]; other site 458233003154 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 458233003155 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 458233003156 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 458233003157 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 458233003158 RNA binding site [nucleotide binding]; other site 458233003159 active site 458233003160 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 458233003161 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 458233003162 active site 458233003163 Riboflavin kinase; Region: Flavokinase; smart00904 458233003164 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 458233003165 16S/18S rRNA binding site [nucleotide binding]; other site 458233003166 S13e-L30e interaction site [polypeptide binding]; other site 458233003167 25S rRNA binding site [nucleotide binding]; other site 458233003168 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 458233003169 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 458233003170 RNase E interface [polypeptide binding]; other site 458233003171 trimer interface [polypeptide binding]; other site 458233003172 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 458233003173 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 458233003174 RNase E interface [polypeptide binding]; other site 458233003175 trimer interface [polypeptide binding]; other site 458233003176 active site 458233003177 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 458233003178 putative nucleic acid binding region [nucleotide binding]; other site 458233003179 G-X-X-G motif; other site 458233003180 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 458233003181 RNA binding site [nucleotide binding]; other site 458233003182 domain interface; other site 458233003183 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233003184 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458233003185 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233003186 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 458233003187 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458233003188 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 458233003189 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 458233003190 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 458233003191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233003192 DNA-binding site [nucleotide binding]; DNA binding site 458233003193 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 458233003194 UTRA domain; Region: UTRA; pfam07702 458233003195 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233003196 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233003197 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233003198 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458233003199 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233003200 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 458233003201 classical (c) SDRs; Region: SDR_c; cd05233 458233003202 NAD(P) binding site [chemical binding]; other site 458233003203 active site 458233003204 ACT domain; Region: ACT; pfam01842 458233003205 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 458233003206 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 458233003207 Helix-turn-helix domain; Region: HTH_25; pfam13413 458233003208 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 458233003209 recombinase A; Provisional; Region: recA; PRK09354 458233003210 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 458233003211 hexamer interface [polypeptide binding]; other site 458233003212 Walker A motif; other site 458233003213 ATP binding site [chemical binding]; other site 458233003214 Walker B motif; other site 458233003215 phosphodiesterase; Provisional; Region: PRK12704 458233003216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233003217 Zn2+ binding site [ion binding]; other site 458233003218 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 458233003219 Mg2+ binding site [ion binding]; other site 458233003220 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 458233003221 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233003222 putative active site [active] 458233003223 metal binding site [ion binding]; metal-binding site 458233003224 homodimer binding site [polypeptide binding]; other site 458233003225 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 458233003226 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 458233003227 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 458233003228 dimer interface [polypeptide binding]; other site 458233003229 PYR/PP interface [polypeptide binding]; other site 458233003230 TPP binding site [chemical binding]; other site 458233003231 substrate binding site [chemical binding]; other site 458233003232 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 458233003233 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 458233003234 TPP-binding site [chemical binding]; other site 458233003235 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 458233003236 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 458233003237 NMT1/THI5 like; Region: NMT1; pfam09084 458233003238 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 458233003239 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 458233003240 ABC-ATPase subunit interface; other site 458233003241 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 458233003242 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 458233003243 Walker A/P-loop; other site 458233003244 ATP binding site [chemical binding]; other site 458233003245 Q-loop/lid; other site 458233003246 ABC transporter signature motif; other site 458233003247 Walker B; other site 458233003248 D-loop; other site 458233003249 H-loop/switch region; other site 458233003250 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458233003251 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 458233003252 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233003253 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233003254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233003255 Walker A/P-loop; other site 458233003256 ATP binding site [chemical binding]; other site 458233003257 Q-loop/lid; other site 458233003258 ABC transporter signature motif; other site 458233003259 Walker B; other site 458233003260 D-loop; other site 458233003261 H-loop/switch region; other site 458233003262 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233003263 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233003264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233003265 Walker A/P-loop; other site 458233003266 ATP binding site [chemical binding]; other site 458233003267 Q-loop/lid; other site 458233003268 ABC transporter signature motif; other site 458233003269 Walker B; other site 458233003270 D-loop; other site 458233003271 H-loop/switch region; other site 458233003272 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 458233003273 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458233003274 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 458233003275 FeS/SAM binding site; other site 458233003276 TRAM domain; Region: TRAM; pfam01938 458233003277 Predicted membrane protein [Function unknown]; Region: COG4550 458233003278 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 458233003279 MutS domain I; Region: MutS_I; pfam01624 458233003280 MutS domain II; Region: MutS_II; pfam05188 458233003281 MutS domain III; Region: MutS_III; pfam05192 458233003282 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 458233003283 Walker A/P-loop; other site 458233003284 ATP binding site [chemical binding]; other site 458233003285 Q-loop/lid; other site 458233003286 ABC transporter signature motif; other site 458233003287 Walker B; other site 458233003288 D-loop; other site 458233003289 H-loop/switch region; other site 458233003290 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 458233003291 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 458233003292 ATP binding site [chemical binding]; other site 458233003293 Mg2+ binding site [ion binding]; other site 458233003294 G-X-G motif; other site 458233003295 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 458233003296 ATP binding site [chemical binding]; other site 458233003297 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 458233003298 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 458233003299 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 458233003300 amphipathic channel; other site 458233003301 Asn-Pro-Ala signature motifs; other site 458233003302 glycerol kinase; Provisional; Region: glpK; PRK00047 458233003303 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 458233003304 N- and C-terminal domain interface [polypeptide binding]; other site 458233003305 active site 458233003306 MgATP binding site [chemical binding]; other site 458233003307 catalytic site [active] 458233003308 metal binding site [ion binding]; metal-binding site 458233003309 glycerol binding site [chemical binding]; other site 458233003310 homotetramer interface [polypeptide binding]; other site 458233003311 homodimer interface [polypeptide binding]; other site 458233003312 FBP binding site [chemical binding]; other site 458233003313 protein IIAGlc interface [polypeptide binding]; other site 458233003314 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458233003315 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458233003316 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458233003317 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 458233003318 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 458233003319 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 458233003320 catalytic residues [active] 458233003321 dimer interface [polypeptide binding]; other site 458233003322 GTPases [General function prediction only]; Region: HflX; COG2262 458233003323 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 458233003324 HflX GTPase family; Region: HflX; cd01878 458233003325 G1 box; other site 458233003326 GTP/Mg2+ binding site [chemical binding]; other site 458233003327 Switch I region; other site 458233003328 G2 box; other site 458233003329 G3 box; other site 458233003330 Switch II region; other site 458233003331 G4 box; other site 458233003332 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 458233003333 Aluminium resistance protein; Region: Alum_res; pfam06838 458233003334 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233003335 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 458233003336 DNA binding residues [nucleotide binding] 458233003337 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 458233003338 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 458233003339 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458233003340 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 458233003341 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 458233003342 Int/Topo IB signature motif; other site 458233003343 Abi-like protein; Region: Abi_2; pfam07751 458233003344 SAP domain; Region: SAP; pfam02037 458233003345 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233003346 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 458233003347 sequence-specific DNA binding site [nucleotide binding]; other site 458233003348 salt bridge; other site 458233003349 AntA/AntB antirepressor; Region: AntA; cl01430 458233003350 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 458233003351 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 458233003352 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458233003353 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 458233003354 dimer interface [polypeptide binding]; other site 458233003355 ssDNA binding site [nucleotide binding]; other site 458233003356 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233003357 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 458233003358 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 458233003359 YopX protein; Region: YopX; pfam09643 458233003360 dUTPase; Region: dUTPase_2; pfam08761 458233003361 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 458233003362 active site 458233003363 homodimer interface [polypeptide binding]; other site 458233003364 metal binding site [ion binding]; metal-binding site 458233003365 Endodeoxyribonuclease RusA; Region: RusA; cl01885 458233003366 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 458233003367 positive control sigma-like factor; Validated; Region: PRK06930 458233003368 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 458233003369 DNA binding residues [nucleotide binding] 458233003370 Terminase small subunit; Region: Terminase_2; cl01513 458233003371 Phage terminase large subunit; Region: Terminase_3; cl12054 458233003372 Terminase-like family; Region: Terminase_6; pfam03237 458233003373 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 458233003374 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 458233003375 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 458233003376 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 458233003377 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 458233003378 Phage gp6-like head-tail connector protein; Region: Phage_connect_1; pfam05135 458233003379 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 458233003380 Phage major tail protein 2; Region: Phage_tail_2; cl11463 458233003381 Phage protein; Region: DUF3647; pfam12363 458233003382 Phage-related protein [Function unknown]; Region: COG5412 458233003383 glycoprotein BALF4; Provisional; Region: PHA03231 458233003384 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233003385 Holin family; Region: Phage_holin_4; pfam05105 458233003386 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 458233003387 amidase catalytic site [active] 458233003388 Zn binding residues [ion binding]; other site 458233003389 substrate binding site [chemical binding]; other site 458233003390 Bacterial SH3 domain; Region: SH3_5; pfam08460 458233003391 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 458233003392 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 458233003393 Int/Topo IB signature motif; other site 458233003394 Domain of unknown function (DUF955); Region: DUF955; pfam06114 458233003395 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 458233003396 Uncharacterized conserved protein [Function unknown]; Region: COG4748 458233003397 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 458233003398 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 458233003399 non-specific DNA binding site [nucleotide binding]; other site 458233003400 salt bridge; other site 458233003401 sequence-specific DNA binding site [nucleotide binding]; other site 458233003402 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 458233003403 non-specific DNA binding site [nucleotide binding]; other site 458233003404 salt bridge; other site 458233003405 sequence-specific DNA binding site [nucleotide binding]; other site 458233003406 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 458233003407 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 458233003408 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 458233003409 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 458233003410 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 458233003411 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233003412 hypothetical protein; Validated; Region: PRK08116 458233003413 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 458233003414 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458233003415 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 458233003416 dimer interface [polypeptide binding]; other site 458233003417 ssDNA binding site [nucleotide binding]; other site 458233003418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233003419 HNH endonuclease; Region: HNH_3; pfam13392 458233003420 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_u3; cd11540 458233003421 putative metal binding site [ion binding]; other site 458233003422 Uncharacterized conserved protein [Function unknown]; Region: COG5484 458233003423 Phage terminase large subunit; Region: Terminase_3; cl12054 458233003424 Terminase-like family; Region: Terminase_6; pfam03237 458233003425 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 458233003426 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233003427 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 458233003428 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 458233003429 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 458233003430 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 458233003431 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 458233003432 Phage-related protein [Function unknown]; Region: COG5412 458233003433 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458233003434 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233003435 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 458233003436 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 458233003437 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458233003438 catalytic residue [active] 458233003439 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458233003440 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233003441 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458233003442 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233003443 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233003444 Holin family; Region: Phage_holin_4; pfam05105 458233003445 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 458233003446 active site 458233003447 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 458233003448 amidase catalytic site [active] 458233003449 Zn binding residues [ion binding]; other site 458233003450 substrate binding site [chemical binding]; other site 458233003451 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 458233003452 AAA domain; Region: AAA_21; pfam13304 458233003453 YolD-like protein; Region: YolD; pfam08863 458233003454 aspartate kinase; Reviewed; Region: PRK09034 458233003455 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 458233003456 nucleotide binding site [chemical binding]; other site 458233003457 substrate binding site [chemical binding]; other site 458233003458 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 458233003459 allosteric regulatory residue; other site 458233003460 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 458233003461 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 458233003462 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 458233003463 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458233003464 threonine synthase; Reviewed; Region: PRK06721 458233003465 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 458233003466 homodimer interface [polypeptide binding]; other site 458233003467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233003468 catalytic residue [active] 458233003469 homoserine kinase; Provisional; Region: PRK01212 458233003470 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458233003471 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 458233003472 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233003473 active site 458233003474 motif I; other site 458233003475 motif II; other site 458233003476 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458233003477 lysine transporter; Provisional; Region: PRK10836 458233003478 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 458233003479 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 458233003480 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 458233003481 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 458233003482 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 458233003483 intersubunit interface [polypeptide binding]; other site 458233003484 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 458233003485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458233003486 active site 458233003487 metal binding site [ion binding]; metal-binding site 458233003488 LexA repressor; Validated; Region: PRK00215 458233003489 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 458233003490 putative DNA binding site [nucleotide binding]; other site 458233003491 putative Zn2+ binding site [ion binding]; other site 458233003492 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 458233003493 Catalytic site [active] 458233003494 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 458233003495 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 458233003496 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 458233003497 TPP-binding site [chemical binding]; other site 458233003498 dimer interface [polypeptide binding]; other site 458233003499 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 458233003500 PYR/PP interface [polypeptide binding]; other site 458233003501 dimer interface [polypeptide binding]; other site 458233003502 TPP binding site [chemical binding]; other site 458233003503 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233003504 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 458233003505 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 458233003506 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 458233003507 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 458233003508 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458233003509 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233003510 active site 458233003511 metal binding site [ion binding]; metal-binding site 458233003512 DNA binding site [nucleotide binding] 458233003513 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 458233003514 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 458233003515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233003516 Walker A/P-loop; other site 458233003517 ATP binding site [chemical binding]; other site 458233003518 Q-loop/lid; other site 458233003519 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 458233003520 ABC transporter signature motif; other site 458233003521 Walker B; other site 458233003522 D-loop; other site 458233003523 H-loop/switch region; other site 458233003524 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 458233003525 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 458233003526 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13954 458233003527 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 458233003528 BCCT family transporter; Region: BCCT; pfam02028 458233003529 aconitate hydratase; Validated; Region: PRK09277 458233003530 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 458233003531 substrate binding site [chemical binding]; other site 458233003532 ligand binding site [chemical binding]; other site 458233003533 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 458233003534 substrate binding site [chemical binding]; other site 458233003535 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 458233003536 active site 458233003537 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 458233003538 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 458233003539 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 458233003540 ATP binding site [chemical binding]; other site 458233003541 Mg2+ binding site [ion binding]; other site 458233003542 G-X-G motif; other site 458233003543 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 458233003544 anchoring element; other site 458233003545 dimer interface [polypeptide binding]; other site 458233003546 ATP binding site [chemical binding]; other site 458233003547 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 458233003548 active site 458233003549 putative metal-binding site [ion binding]; other site 458233003550 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458233003551 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 458233003552 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 458233003553 CAP-like domain; other site 458233003554 active site 458233003555 primary dimer interface [polypeptide binding]; other site 458233003556 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233003557 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458233003558 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 458233003559 Predicted secreted protein [Function unknown]; Region: COG4086 458233003560 transcriptional antiterminator BglG; Provisional; Region: PRK09772 458233003561 CAT RNA binding domain; Region: CAT_RBD; cl03904 458233003562 PRD domain; Region: PRD; pfam00874 458233003563 PRD domain; Region: PRD; pfam00874 458233003564 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 458233003565 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 458233003566 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 458233003567 active site turn [active] 458233003568 phosphorylation site [posttranslational modification] 458233003569 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 458233003570 HPr interaction site; other site 458233003571 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233003572 active site 458233003573 phosphorylation site [posttranslational modification] 458233003574 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458233003575 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458233003576 Predicted integral membrane protein [Function unknown]; Region: COG0392 458233003577 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 458233003578 methionine sulfoxide reductase A; Provisional; Region: PRK14054 458233003579 Transcriptional regulator [Transcription]; Region: LytR; COG1316 458233003580 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233003581 Cation efflux family; Region: Cation_efflux; pfam01545 458233003582 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 458233003583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003584 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233003585 Coenzyme A binding pocket [chemical binding]; other site 458233003586 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233003587 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 458233003588 Phosphotransferase enzyme family; Region: APH; pfam01636 458233003589 active site 458233003590 ATP binding site [chemical binding]; other site 458233003591 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 458233003592 nudix motif; other site 458233003593 ParB-like nuclease domain; Region: ParBc; cl02129 458233003594 Predicted transcriptional regulators [Transcription]; Region: COG1725 458233003595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233003596 DNA-binding site [nucleotide binding]; DNA binding site 458233003597 Predicted membrane protein [General function prediction only]; Region: COG4194 458233003598 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 458233003599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003600 Coenzyme A binding pocket [chemical binding]; other site 458233003601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003602 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233003603 Coenzyme A binding pocket [chemical binding]; other site 458233003604 DNA polymerase IV; Reviewed; Region: PRK03103 458233003605 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458233003606 active site 458233003607 DNA binding site [nucleotide binding] 458233003608 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458233003609 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 458233003610 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233003611 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233003612 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 458233003613 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 458233003614 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 458233003615 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 458233003616 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233003617 putative substrate translocation pore; other site 458233003618 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233003619 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 458233003620 putative oligomer interface [polypeptide binding]; other site 458233003621 putative active site [active] 458233003622 metal binding site [ion binding]; metal-binding site 458233003623 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458233003624 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458233003625 potential catalytic triad [active] 458233003626 conserved cys residue [active] 458233003627 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458233003628 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 458233003629 putative switch regulator; other site 458233003630 non-specific DNA interactions [nucleotide binding]; other site 458233003631 DNA binding site [nucleotide binding] 458233003632 sequence specific DNA binding site [nucleotide binding]; other site 458233003633 putative cAMP binding site [chemical binding]; other site 458233003634 FemAB family; Region: FemAB; pfam02388 458233003635 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 458233003636 FemAB family; Region: FemAB; pfam02388 458233003637 Gaa1-like, GPI transamidase component; Region: Gaa1; pfam04114 458233003638 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 458233003639 oligoendopeptidase F; Region: pepF; TIGR00181 458233003640 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 458233003641 active site 458233003642 Zn binding site [ion binding]; other site 458233003643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003644 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 458233003645 NAD(P) binding site [chemical binding]; other site 458233003646 active site 458233003647 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 458233003648 S1 domain; Region: S1_2; pfam13509 458233003649 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458233003650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233003651 Walker A/P-loop; other site 458233003652 ATP binding site [chemical binding]; other site 458233003653 ABC transporter signature motif; other site 458233003654 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233003655 Walker B; other site 458233003656 D-loop; other site 458233003657 H-loop/switch region; other site 458233003658 ABC transporter; Region: ABC_tran_2; pfam12848 458233003659 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233003660 aspartate kinase; Reviewed; Region: PRK06635 458233003661 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 458233003662 nucleotide binding site [chemical binding]; other site 458233003663 substrate binding site [chemical binding]; other site 458233003664 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 458233003665 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 458233003666 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 458233003667 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 458233003668 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458233003669 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 458233003670 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 458233003671 dimer interface [polypeptide binding]; other site 458233003672 active site 458233003673 catalytic residue [active] 458233003674 dihydrodipicolinate reductase; Provisional; Region: PRK00048 458233003675 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 458233003676 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 458233003677 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 458233003678 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 458233003679 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 458233003680 trimer interface [polypeptide binding]; other site 458233003681 active site 458233003682 substrate binding site [chemical binding]; other site 458233003683 CoA binding site [chemical binding]; other site 458233003684 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233003685 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233003686 metal binding site [ion binding]; metal-binding site 458233003687 dimer interface [polypeptide binding]; other site 458233003688 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 458233003689 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 458233003690 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233003691 catalytic residue [active] 458233003692 diaminopimelate decarboxylase; Region: lysA; TIGR01048 458233003693 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 458233003694 active site 458233003695 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233003696 substrate binding site [chemical binding]; other site 458233003697 catalytic residues [active] 458233003698 dimer interface [polypeptide binding]; other site 458233003699 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 458233003700 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; pfam10112 458233003701 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 458233003702 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 458233003703 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 458233003704 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 458233003705 metal ion-dependent adhesion site (MIDAS); other site 458233003706 MoxR-like ATPases [General function prediction only]; Region: COG0714 458233003707 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 458233003708 Walker A motif; other site 458233003709 ATP binding site [chemical binding]; other site 458233003710 Walker B motif; other site 458233003711 arginine finger; other site 458233003712 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233003713 Zn binding site [ion binding]; other site 458233003714 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 458233003715 active site 458233003716 metal binding site [ion binding]; metal-binding site 458233003717 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 458233003718 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 458233003719 E3 interaction surface; other site 458233003720 lipoyl attachment site [posttranslational modification]; other site 458233003721 e3 binding domain; Region: E3_binding; pfam02817 458233003722 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 458233003723 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 458233003724 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 458233003725 TPP-binding site [chemical binding]; other site 458233003726 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 458233003727 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458233003728 HAMP domain; Region: HAMP; pfam00672 458233003729 dimerization interface [polypeptide binding]; other site 458233003730 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 458233003731 dimer interface [polypeptide binding]; other site 458233003732 phosphorylation site [posttranslational modification] 458233003733 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 458233003734 ATP binding site [chemical binding]; other site 458233003735 Mg2+ binding site [ion binding]; other site 458233003736 G-X-G motif; other site 458233003737 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233003738 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 458233003739 active site 458233003740 phosphorylation site [posttranslational modification] 458233003741 intermolecular recognition site; other site 458233003742 dimerization interface [polypeptide binding]; other site 458233003743 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 458233003744 DNA binding site [nucleotide binding] 458233003745 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233003746 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 458233003747 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 458233003748 active site 458233003749 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 458233003750 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 458233003751 active site 458233003752 homodimer interface [polypeptide binding]; other site 458233003753 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458233003754 C-terminal peptidase (prc); Region: prc; TIGR00225 458233003755 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 458233003756 protein binding site [polypeptide binding]; other site 458233003757 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458233003758 Catalytic dyad [active] 458233003759 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458233003760 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 458233003761 HPr interaction site; other site 458233003762 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233003763 active site 458233003764 phosphorylation site [posttranslational modification] 458233003765 methionine sulfoxide reductase B; Provisional; Region: PRK00222 458233003766 SelR domain; Region: SelR; pfam01641 458233003767 methionine sulfoxide reductase A; Provisional; Region: PRK13014 458233003768 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 458233003769 EDD domain protein, DegV family; Region: DegV; TIGR00762 458233003770 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 458233003771 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458233003772 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458233003773 putative acyl-acceptor binding pocket; other site 458233003774 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 458233003775 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 458233003776 folate binding site [chemical binding]; other site 458233003777 NADP+ binding site [chemical binding]; other site 458233003778 thymidylate synthase; Region: thym_sym; TIGR03284 458233003779 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 458233003780 dimerization interface [polypeptide binding]; other site 458233003781 active site 458233003782 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 458233003783 HEAT repeats; Region: HEAT_2; pfam13646 458233003784 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 458233003785 Virulence factor; Region: Virulence_fact; pfam13769 458233003786 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 458233003787 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 458233003788 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233003789 active site 458233003790 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 458233003791 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233003792 active site 458233003793 motif I; other site 458233003794 motif II; other site 458233003795 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; cl17915 458233003796 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 458233003797 5'-3' exonuclease; Region: 53EXOc; smart00475 458233003798 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458233003799 active site 458233003800 metal binding site 1 [ion binding]; metal-binding site 458233003801 putative 5' ssDNA interaction site; other site 458233003802 metal binding site 3; metal-binding site 458233003803 metal binding site 2 [ion binding]; metal-binding site 458233003804 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458233003805 putative DNA binding site [nucleotide binding]; other site 458233003806 putative metal binding site [ion binding]; other site 458233003807 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 458233003808 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 458233003809 active site residue [active] 458233003810 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 458233003811 active site residue [active] 458233003812 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 458233003813 Dynamin family; Region: Dynamin_N; pfam00350 458233003814 G1 box; other site 458233003815 GTP/Mg2+ binding site [chemical binding]; other site 458233003816 G2 box; other site 458233003817 Switch I region; other site 458233003818 G3 box; other site 458233003819 Switch II region; other site 458233003820 G4 box; other site 458233003821 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 458233003822 Dynamin family; Region: Dynamin_N; pfam00350 458233003823 G1 box; other site 458233003824 GTP/Mg2+ binding site [chemical binding]; other site 458233003825 G2 box; other site 458233003826 Switch I region; other site 458233003827 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 458233003828 Switch I region; other site 458233003829 G3 box; other site 458233003830 Switch II region; other site 458233003831 GTP/Mg2+ binding site [chemical binding]; other site 458233003832 G4 box; other site 458233003833 G5 box; other site 458233003834 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 458233003835 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 458233003836 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 458233003837 Putative D-pathway homolog; other site 458233003838 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 458233003839 Low-spin heme binding site [chemical binding]; other site 458233003840 Subunit I/II interface [polypeptide binding]; other site 458233003841 Putative Q-pathway; other site 458233003842 Putative alternate electron transfer pathway; other site 458233003843 Putative water exit pathway; other site 458233003844 Binuclear center (active site) [active] 458233003845 Putative K-pathway homolog; other site 458233003846 Putative proton exit pathway; other site 458233003847 Subunit I/IIa interface [polypeptide binding]; other site 458233003848 Electron transfer pathway; other site 458233003849 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 458233003850 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 458233003851 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 458233003852 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 458233003853 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 458233003854 cell division protein GpsB; Provisional; Region: PRK14127 458233003855 DivIVA domain; Region: DivI1A_domain; TIGR03544 458233003856 Protein of unknown function (DUF972); Region: DUF972; pfam06156 458233003857 hypothetical protein; Provisional; Region: PRK13660 458233003858 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 458233003859 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 458233003860 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 458233003861 Transglycosylase; Region: Transgly; pfam00912 458233003862 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 458233003863 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 458233003864 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233003865 minor groove reading motif; other site 458233003866 helix-hairpin-helix signature motif; other site 458233003867 substrate binding pocket [chemical binding]; other site 458233003868 active site 458233003869 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 458233003870 Helix-turn-helix domain; Region: HTH_36; pfam13730 458233003871 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 458233003872 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 458233003873 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 458233003874 putative dimer interface [polypeptide binding]; other site 458233003875 putative anticodon binding site; other site 458233003876 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 458233003877 homodimer interface [polypeptide binding]; other site 458233003878 motif 1; other site 458233003879 motif 2; other site 458233003880 active site 458233003881 motif 3; other site 458233003882 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 458233003883 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458233003884 active site 458233003885 catalytic site [active] 458233003886 substrate binding site [chemical binding]; other site 458233003887 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 458233003888 Biotin operon repressor [Transcription]; Region: BirA; COG1654 458233003889 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458233003890 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 458233003891 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 458233003892 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458233003893 active site 458233003894 NTP binding site [chemical binding]; other site 458233003895 metal binding triad [ion binding]; metal-binding site 458233003896 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458233003897 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 458233003898 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 458233003899 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 458233003900 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 458233003901 homodimer interface [polypeptide binding]; other site 458233003902 metal binding site [ion binding]; metal-binding site 458233003903 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233003904 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233003905 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233003906 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233003907 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 458233003908 Protein of unknown function (DUF1405); Region: DUF1405; pfam07187 458233003909 interchain domain interface [polypeptide binding]; other site 458233003910 intrachain domain interface; other site 458233003911 Qi binding site; other site 458233003912 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 458233003913 Qo binding site; other site 458233003914 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458233003915 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458233003916 cytochrome b6; Provisional; Region: PRK03735 458233003917 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 458233003918 interchain domain interface [polypeptide binding]; other site 458233003919 intrachain domain interface; other site 458233003920 heme bH binding site [chemical binding]; other site 458233003921 Qi binding site; other site 458233003922 heme bL binding site [chemical binding]; other site 458233003923 Qo binding site; other site 458233003924 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 458233003925 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 458233003926 iron-sulfur cluster [ion binding]; other site 458233003927 [2Fe-2S] cluster binding site [ion binding]; other site 458233003928 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 458233003929 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 458233003930 TPR motif; other site 458233003931 binding surface 458233003932 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 458233003933 binding surface 458233003934 TPR motif; other site 458233003935 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 458233003936 TPR motif; other site 458233003937 binding surface 458233003938 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 458233003939 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 458233003940 hinge; other site 458233003941 active site 458233003942 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 458233003943 active site 458233003944 dimer interface [polypeptide binding]; other site 458233003945 metal binding site [ion binding]; metal-binding site 458233003946 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 458233003947 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 458233003948 Tetramer interface [polypeptide binding]; other site 458233003949 active site 458233003950 FMN-binding site [chemical binding]; other site 458233003951 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 458233003952 active site 458233003953 multimer interface [polypeptide binding]; other site 458233003954 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458233003955 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458233003956 substrate binding pocket [chemical binding]; other site 458233003957 chain length determination region; other site 458233003958 substrate-Mg2+ binding site; other site 458233003959 catalytic residues [active] 458233003960 aspartate-rich region 1; other site 458233003961 active site lid residues [active] 458233003962 aspartate-rich region 2; other site 458233003963 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 458233003964 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 458233003965 S-adenosylmethionine binding site [chemical binding]; other site 458233003966 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 458233003967 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 458233003968 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 458233003969 GTP-binding protein Der; Reviewed; Region: PRK00093 458233003970 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 458233003971 G1 box; other site 458233003972 GTP/Mg2+ binding site [chemical binding]; other site 458233003973 Switch I region; other site 458233003974 G2 box; other site 458233003975 Switch II region; other site 458233003976 G3 box; other site 458233003977 G4 box; other site 458233003978 G5 box; other site 458233003979 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 458233003980 G1 box; other site 458233003981 GTP/Mg2+ binding site [chemical binding]; other site 458233003982 Switch I region; other site 458233003983 G2 box; other site 458233003984 G3 box; other site 458233003985 Switch II region; other site 458233003986 G4 box; other site 458233003987 G5 box; other site 458233003988 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 458233003989 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 458233003990 RNA binding site [nucleotide binding]; other site 458233003991 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 458233003992 RNA binding site [nucleotide binding]; other site 458233003993 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 458233003994 RNA binding site [nucleotide binding]; other site 458233003995 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 458233003996 RNA binding site [nucleotide binding]; other site 458233003997 cytidylate kinase; Provisional; Region: cmk; PRK00023 458233003998 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 458233003999 CMP-binding site; other site 458233004000 The sites determining sugar specificity; other site 458233004001 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 458233004002 active site 458233004003 homotetramer interface [polypeptide binding]; other site 458233004004 homodimer interface [polypeptide binding]; other site 458233004005 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 458233004006 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 458233004007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233004008 FOG: CBS domain [General function prediction only]; Region: COG0517 458233004009 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 458233004010 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233004011 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 458233004012 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 458233004013 ATP binding site [chemical binding]; other site 458233004014 putative Mg++ binding site [ion binding]; other site 458233004015 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 458233004016 nucleotide binding region [chemical binding]; other site 458233004017 ATP-binding site [chemical binding]; other site 458233004018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 458233004019 Predicted membrane protein [Function unknown]; Region: COG3601 458233004020 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 458233004021 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 458233004022 dimerization interface [polypeptide binding]; other site 458233004023 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458233004024 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 458233004025 dimer interface [polypeptide binding]; other site 458233004026 phosphorylation site [posttranslational modification] 458233004027 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 458233004028 ATP binding site [chemical binding]; other site 458233004029 Mg2+ binding site [ion binding]; other site 458233004030 G-X-G motif; other site 458233004031 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233004032 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 458233004033 active site 458233004034 phosphorylation site [posttranslational modification] 458233004035 intermolecular recognition site; other site 458233004036 dimerization interface [polypeptide binding]; other site 458233004037 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 458233004038 DNA binding site [nucleotide binding] 458233004039 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233004040 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233004041 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 458233004042 ResB-like family; Region: ResB; pfam05140 458233004043 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 458233004044 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458233004045 catalytic residues [active] 458233004046 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233004047 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 458233004048 RNA binding surface [nucleotide binding]; other site 458233004049 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 458233004050 active site 458233004051 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 458233004052 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 458233004053 Domain of unknown function (DUF309); Region: DUF309; pfam03745 458233004054 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 458233004055 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 458233004056 active site 458233004057 Int/Topo IB signature motif; other site 458233004058 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233004059 metal binding site 2 [ion binding]; metal-binding site 458233004060 putative DNA binding helix; other site 458233004061 metal binding site 1 [ion binding]; metal-binding site 458233004062 dimer interface [polypeptide binding]; other site 458233004063 structural Zn2+ binding site [ion binding]; other site 458233004064 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 458233004065 dimer interface [polypeptide binding]; other site 458233004066 ADP-ribose binding site [chemical binding]; other site 458233004067 active site 458233004068 nudix motif; other site 458233004069 metal binding site [ion binding]; metal-binding site 458233004070 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 458233004071 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 458233004072 active site 458233004073 catalytic tetrad [active] 458233004074 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458233004075 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458233004076 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 458233004077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004078 NAD(P) binding site [chemical binding]; other site 458233004079 active site 458233004080 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 458233004081 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 458233004082 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233004083 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 458233004084 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 458233004085 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 458233004086 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 458233004087 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 458233004088 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 458233004089 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 458233004090 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 458233004091 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 458233004092 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 458233004093 peptidase T-like protein; Region: PepT-like; TIGR01883 458233004094 metal binding site [ion binding]; metal-binding site 458233004095 putative dimer interface [polypeptide binding]; other site 458233004096 Predicted membrane protein [Function unknown]; Region: COG4129 458233004097 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 458233004098 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 458233004099 Disulphide isomerase; Region: Disulph_isomer; pfam06491 458233004100 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 458233004101 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458233004102 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 458233004103 NAD binding site [chemical binding]; other site 458233004104 Phe binding site; other site 458233004105 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458233004106 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 458233004107 active site 458233004108 catalytic site [active] 458233004109 metal binding site [ion binding]; metal-binding site 458233004110 dimer interface [polypeptide binding]; other site 458233004111 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 458233004112 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 458233004113 active site 458233004114 phosphorylation site [posttranslational modification] 458233004115 intermolecular recognition site; other site 458233004116 dimerization interface [polypeptide binding]; other site 458233004117 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 458233004118 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 458233004119 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 458233004120 Walker A/P-loop; other site 458233004121 ATP binding site [chemical binding]; other site 458233004122 Q-loop/lid; other site 458233004123 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 458233004124 ABC transporter signature motif; other site 458233004125 Walker B; other site 458233004126 D-loop; other site 458233004127 H-loop/switch region; other site 458233004128 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 458233004129 arginine repressor; Provisional; Region: PRK04280 458233004130 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 458233004131 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 458233004132 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 458233004133 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458233004134 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 458233004135 TPP-binding site; other site 458233004136 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 458233004137 PYR/PP interface [polypeptide binding]; other site 458233004138 dimer interface [polypeptide binding]; other site 458233004139 TPP binding site [chemical binding]; other site 458233004140 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233004141 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458233004142 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458233004143 substrate binding pocket [chemical binding]; other site 458233004144 chain length determination region; other site 458233004145 substrate-Mg2+ binding site; other site 458233004146 catalytic residues [active] 458233004147 aspartate-rich region 1; other site 458233004148 active site lid residues [active] 458233004149 aspartate-rich region 2; other site 458233004150 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 458233004151 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 458233004152 generic binding surface II; other site 458233004153 generic binding surface I; other site 458233004154 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 458233004155 putative RNA binding site [nucleotide binding]; other site 458233004156 Asp23 family; Region: Asp23; pfam03780 458233004157 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458233004158 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233004159 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458233004160 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 458233004161 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458233004162 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 458233004163 carboxyltransferase (CT) interaction site; other site 458233004164 biotinylation site [posttranslational modification]; other site 458233004165 elongation factor P; Validated; Region: PRK00529 458233004166 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 458233004167 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 458233004168 RNA binding site [nucleotide binding]; other site 458233004169 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 458233004170 RNA binding site [nucleotide binding]; other site 458233004171 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458233004172 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458233004173 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 458233004174 active site 458233004175 AAA domain; Region: AAA_13; pfam13166 458233004176 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 458233004177 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 458233004178 active site residue [active] 458233004179 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 458233004180 tetramer interface [polypeptide binding]; other site 458233004181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233004182 catalytic residue [active] 458233004183 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 458233004184 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 458233004185 tetramer interface [polypeptide binding]; other site 458233004186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233004187 catalytic residue [active] 458233004188 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 458233004189 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 458233004190 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 458233004191 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 458233004192 ADP binding site [chemical binding]; other site 458233004193 magnesium binding site [ion binding]; other site 458233004194 putative shikimate binding site; other site 458233004195 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 458233004196 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 458233004197 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 458233004198 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 458233004199 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458233004200 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458233004201 Type II/IV secretion system protein; Region: T2SE; pfam00437 458233004202 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 458233004203 Walker A motif; other site 458233004204 ATP binding site [chemical binding]; other site 458233004205 Walker B motif; other site 458233004206 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 458233004207 Protein of unknown function (DUF2759); Region: DUF2759; pfam10958 458233004208 Uncharacterized conserved protein [Function unknown]; Region: COG0011 458233004209 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 458233004210 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 458233004211 nucleotide binding site [chemical binding]; other site 458233004212 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 458233004213 TPR repeat; Region: TPR_11; pfam13414 458233004214 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 458233004215 TPR motif; other site 458233004216 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 458233004217 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 458233004218 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 458233004219 PhoU domain; Region: PhoU; pfam01895 458233004220 PhoU domain; Region: PhoU; pfam01895 458233004221 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 458233004222 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 458233004223 Walker A/P-loop; other site 458233004224 ATP binding site [chemical binding]; other site 458233004225 Q-loop/lid; other site 458233004226 ABC transporter signature motif; other site 458233004227 Walker B; other site 458233004228 D-loop; other site 458233004229 H-loop/switch region; other site 458233004230 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 458233004231 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 458233004232 dimer interface [polypeptide binding]; other site 458233004233 conserved gate region; other site 458233004234 putative PBP binding loops; other site 458233004235 ABC-ATPase subunit interface; other site 458233004236 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 458233004237 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 458233004238 dimer interface [polypeptide binding]; other site 458233004239 conserved gate region; other site 458233004240 putative PBP binding loops; other site 458233004241 ABC-ATPase subunit interface; other site 458233004242 PBP superfamily domain; Region: PBP_like_2; cl17296 458233004243 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 458233004244 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233004245 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233004246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 458233004247 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 458233004248 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 458233004249 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 458233004250 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 458233004251 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 458233004252 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458233004253 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458233004254 Uncharacterized conserved protein [Function unknown]; Region: COG5663 458233004255 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233004256 metal binding site 2 [ion binding]; metal-binding site 458233004257 putative DNA binding helix; other site 458233004258 metal binding site 1 [ion binding]; metal-binding site 458233004259 dimer interface [polypeptide binding]; other site 458233004260 structural Zn2+ binding site [ion binding]; other site 458233004261 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 458233004262 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 458233004263 ABC-ATPase subunit interface; other site 458233004264 dimer interface [polypeptide binding]; other site 458233004265 putative PBP binding regions; other site 458233004266 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 458233004267 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 458233004268 endonuclease IV; Provisional; Region: PRK01060 458233004269 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 458233004270 AP (apurinic/apyrimidinic) site pocket; other site 458233004271 DNA interaction; other site 458233004272 Metal-binding active site; metal-binding site 458233004273 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 458233004274 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458233004275 ATP binding site [chemical binding]; other site 458233004276 putative Mg++ binding site [ion binding]; other site 458233004277 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 458233004278 nucleotide binding region [chemical binding]; other site 458233004279 ATP-binding site [chemical binding]; other site 458233004280 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 458233004281 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 458233004282 Uncharacterized conserved protein [Function unknown]; Region: COG0327 458233004283 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 458233004284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 458233004285 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 458233004286 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 458233004287 Family of unknown function (DUF633); Region: DUF633; pfam04816 458233004288 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458233004289 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 458233004290 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 458233004291 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458233004292 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458233004293 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458233004294 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 458233004295 DNA binding residues [nucleotide binding] 458233004296 DNA primase; Validated; Region: dnaG; PRK05667 458233004297 CHC2 zinc finger; Region: zf-CHC2; pfam01807 458233004298 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 458233004299 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 458233004300 active site 458233004301 metal binding site [ion binding]; metal-binding site 458233004302 interdomain interaction site; other site 458233004303 PEP synthetase regulatory protein; Provisional; Region: PRK05339 458233004304 HTH domain; Region: HTH_11; pfam08279 458233004305 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 458233004306 FOG: CBS domain [General function prediction only]; Region: COG0517 458233004307 glycyl-tRNA synthetase; Provisional; Region: PRK04173 458233004308 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 458233004309 motif 1; other site 458233004310 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 458233004311 active site 458233004312 motif 2; other site 458233004313 motif 3; other site 458233004314 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 458233004315 anticodon binding site; other site 458233004316 DNA repair protein RecO; Region: reco; TIGR00613 458233004317 Recombination protein O N terminal; Region: RecO_N; pfam11967 458233004318 Recombination protein O C terminal; Region: RecO_C; pfam02565 458233004319 GTPase Era; Reviewed; Region: era; PRK00089 458233004320 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 458233004321 G1 box; other site 458233004322 GTP/Mg2+ binding site [chemical binding]; other site 458233004323 Switch I region; other site 458233004324 G2 box; other site 458233004325 Switch II region; other site 458233004326 G3 box; other site 458233004327 G4 box; other site 458233004328 G5 box; other site 458233004329 KH domain; Region: KH_2; pfam07650 458233004330 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 458233004331 active site 458233004332 catalytic motif [active] 458233004333 Zn binding site [ion binding]; other site 458233004334 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 458233004335 metal-binding heat shock protein; Provisional; Region: PRK00016 458233004336 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 458233004337 PhoH-like protein; Region: PhoH; pfam02562 458233004338 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 458233004339 Domain of unknown function DUF148; Region: DUF148; pfam02520 458233004340 hypothetical protein; Provisional; Region: PRK13665 458233004341 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 458233004342 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 458233004343 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458233004344 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 458233004345 FeS/SAM binding site; other site 458233004346 TRAM domain; Region: TRAM; cl01282 458233004347 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 458233004348 RNA methyltransferase, RsmE family; Region: TIGR00046 458233004349 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 458233004350 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 458233004351 S-adenosylmethionine binding site [chemical binding]; other site 458233004352 chaperone protein DnaJ; Provisional; Region: PRK14280 458233004353 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 458233004354 HSP70 interaction site [polypeptide binding]; other site 458233004355 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 458233004356 substrate binding site [polypeptide binding]; other site 458233004357 dimer interface [polypeptide binding]; other site 458233004358 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 458233004359 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 458233004360 nucleotide binding site [chemical binding]; other site 458233004361 NEF interaction site [polypeptide binding]; other site 458233004362 SBD interface [polypeptide binding]; other site 458233004363 GrpE; Region: GrpE; pfam01025 458233004364 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 458233004365 dimer interface [polypeptide binding]; other site 458233004366 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 458233004367 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 458233004368 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 458233004369 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 458233004370 FeS/SAM binding site; other site 458233004371 HemN C-terminal domain; Region: HemN_C; pfam06969 458233004372 GTP-binding protein LepA; Provisional; Region: PRK05433 458233004373 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 458233004374 G1 box; other site 458233004375 putative GEF interaction site [polypeptide binding]; other site 458233004376 GTP/Mg2+ binding site [chemical binding]; other site 458233004377 Switch I region; other site 458233004378 G2 box; other site 458233004379 G3 box; other site 458233004380 Switch II region; other site 458233004381 G4 box; other site 458233004382 G5 box; other site 458233004383 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 458233004384 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 458233004385 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 458233004386 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 458233004387 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 458233004388 Competence protein; Region: Competence; pfam03772 458233004389 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458233004390 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 458233004391 catalytic motif [active] 458233004392 Zn binding site [ion binding]; other site 458233004393 comEA protein; Region: comE; TIGR01259 458233004394 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458233004395 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 458233004396 S-adenosylmethionine binding site [chemical binding]; other site 458233004397 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 458233004398 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233004399 Zn2+ binding site [ion binding]; other site 458233004400 Mg2+ binding site [ion binding]; other site 458233004401 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 458233004402 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 458233004403 active site 458233004404 (T/H)XGH motif; other site 458233004405 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 458233004406 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 458233004407 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 458233004408 shikimate binding site; other site 458233004409 NAD(P) binding site [chemical binding]; other site 458233004410 GTPase YqeH; Provisional; Region: PRK13796 458233004411 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 458233004412 GTP/Mg2+ binding site [chemical binding]; other site 458233004413 G4 box; other site 458233004414 G5 box; other site 458233004415 G1 box; other site 458233004416 Switch I region; other site 458233004417 G2 box; other site 458233004418 G3 box; other site 458233004419 Switch II region; other site 458233004420 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 458233004421 motif II; other site 458233004422 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 458233004423 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 458233004424 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 458233004425 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 458233004426 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458233004427 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 458233004428 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 458233004429 Sugar specificity; other site 458233004430 Pyrimidine base specificity; other site 458233004431 ATP-binding site [chemical binding]; other site 458233004432 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458233004433 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 458233004434 Peptidase family U32; Region: Peptidase_U32; pfam01136 458233004435 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458233004436 Peptidase family U32; Region: Peptidase_U32; pfam01136 458233004437 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 458233004438 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 458233004439 S-adenosylmethionine binding site [chemical binding]; other site 458233004440 YceG-like family; Region: YceG; pfam02618 458233004441 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 458233004442 dimerization interface [polypeptide binding]; other site 458233004443 hypothetical protein; Provisional; Region: PRK13678 458233004444 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 458233004445 hypothetical protein; Provisional; Region: PRK05473 458233004446 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 458233004447 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 458233004448 motif 1; other site 458233004449 active site 458233004450 motif 2; other site 458233004451 motif 3; other site 458233004452 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 458233004453 DHHA1 domain; Region: DHHA1; pfam02272 458233004454 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 458233004455 AAA domain; Region: AAA_30; pfam13604 458233004456 Family description; Region: UvrD_C_2; pfam13538 458233004457 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 458233004458 binding surface 458233004459 TPR motif; other site 458233004460 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458233004461 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 458233004462 binding surface 458233004463 TPR repeat; Region: TPR_11; pfam13414 458233004464 TPR motif; other site 458233004465 TPR repeat; Region: TPR_11; pfam13414 458233004466 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 458233004467 binding surface 458233004468 TPR motif; other site 458233004469 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 458233004470 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 458233004471 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 458233004472 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 458233004473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233004474 catalytic residue [active] 458233004475 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 458233004476 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 458233004477 Predicted transcriptional regulator [Transcription]; Region: COG1959 458233004478 Transcriptional regulator; Region: Rrf2; pfam02082 458233004479 recombination factor protein RarA; Reviewed; Region: PRK13342 458233004480 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 458233004481 Walker A motif; other site 458233004482 ATP binding site [chemical binding]; other site 458233004483 Walker B motif; other site 458233004484 arginine finger; other site 458233004485 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 458233004486 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 458233004487 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 458233004488 putative ATP binding site [chemical binding]; other site 458233004489 putative substrate interface [chemical binding]; other site 458233004490 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 458233004491 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 458233004492 dimer interface [polypeptide binding]; other site 458233004493 anticodon binding site; other site 458233004494 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 458233004495 homodimer interface [polypeptide binding]; other site 458233004496 motif 1; other site 458233004497 active site 458233004498 motif 2; other site 458233004499 GAD domain; Region: GAD; pfam02938 458233004500 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 458233004501 motif 3; other site 458233004502 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 458233004503 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 458233004504 dimer interface [polypeptide binding]; other site 458233004505 motif 1; other site 458233004506 active site 458233004507 motif 2; other site 458233004508 motif 3; other site 458233004509 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 458233004510 anticodon binding site; other site 458233004511 Bacterial SH3 domain; Region: SH3_3; pfam08239 458233004512 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 458233004513 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 458233004514 active site 458233004515 metal binding site [ion binding]; metal-binding site 458233004516 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 458233004517 putative active site [active] 458233004518 dimerization interface [polypeptide binding]; other site 458233004519 putative tRNAtyr binding site [nucleotide binding]; other site 458233004520 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 458233004521 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233004522 Zn2+ binding site [ion binding]; other site 458233004523 Mg2+ binding site [ion binding]; other site 458233004524 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233004525 synthetase active site [active] 458233004526 NTP binding site [chemical binding]; other site 458233004527 metal binding site [ion binding]; metal-binding site 458233004528 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 458233004529 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458233004530 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233004531 active site 458233004532 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 458233004533 DHH family; Region: DHH; pfam01368 458233004534 DHHA1 domain; Region: DHHA1; pfam02272 458233004535 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 458233004536 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233004537 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 458233004538 metal binding site [ion binding]; metal-binding site 458233004539 putative dimer interface [polypeptide binding]; other site 458233004540 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458233004541 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 458233004542 active site 458233004543 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 458233004544 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 458233004545 Protein export membrane protein; Region: SecD_SecF; pfam02355 458233004546 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 458233004547 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 458233004548 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 458233004549 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 458233004550 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 458233004551 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 458233004552 Walker A motif; other site 458233004553 ATP binding site [chemical binding]; other site 458233004554 Walker B motif; other site 458233004555 arginine finger; other site 458233004556 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 458233004557 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 458233004558 RuvA N terminal domain; Region: RuvA_N; pfam01330 458233004559 hypothetical protein; Provisional; Region: PRK04435 458233004560 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458233004561 GTPase CgtA; Reviewed; Region: obgE; PRK12297 458233004562 GTP1/OBG; Region: GTP1_OBG; pfam01018 458233004563 Obg GTPase; Region: Obg; cd01898 458233004564 G1 box; other site 458233004565 GTP/Mg2+ binding site [chemical binding]; other site 458233004566 Switch I region; other site 458233004567 G2 box; other site 458233004568 G3 box; other site 458233004569 Switch II region; other site 458233004570 G4 box; other site 458233004571 G5 box; other site 458233004572 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 458233004573 Protein of unknown function (DUF464); Region: DUF464; pfam04327 458233004574 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 458233004575 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 458233004576 rod shape-determining protein MreC; Provisional; Region: PRK13922 458233004577 rod shape-determining protein MreC; Region: MreC; pfam04085 458233004578 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 458233004579 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 458233004580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233004581 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233004582 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233004583 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 458233004584 Walker A/P-loop; other site 458233004585 ATP binding site [chemical binding]; other site 458233004586 Q-loop/lid; other site 458233004587 ABC transporter signature motif; other site 458233004588 Walker B; other site 458233004589 D-loop; other site 458233004590 H-loop/switch region; other site 458233004591 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 458233004592 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233004593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233004594 Walker A/P-loop; other site 458233004595 ATP binding site [chemical binding]; other site 458233004596 Q-loop/lid; other site 458233004597 ABC transporter signature motif; other site 458233004598 Walker B; other site 458233004599 D-loop; other site 458233004600 H-loop/switch region; other site 458233004601 hypothetical protein; Reviewed; Region: PRK00024 458233004602 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458233004603 MPN+ (JAMM) motif; other site 458233004604 Zinc-binding site [ion binding]; other site 458233004605 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 458233004606 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 458233004607 Predicted membrane protein [Function unknown]; Region: COG1288 458233004608 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 458233004609 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 458233004610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233004611 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 458233004612 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233004613 active site 458233004614 HIGH motif; other site 458233004615 nucleotide binding site [chemical binding]; other site 458233004616 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458233004617 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458233004618 active site 458233004619 KMSKS motif; other site 458233004620 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 458233004621 tRNA binding surface [nucleotide binding]; other site 458233004622 anticodon binding site; other site 458233004623 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 458233004624 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 458233004625 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 458233004626 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 458233004627 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 458233004628 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 458233004629 inhibitor-cofactor binding pocket; inhibition site 458233004630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233004631 catalytic residue [active] 458233004632 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 458233004633 dimer interface [polypeptide binding]; other site 458233004634 active site 458233004635 Schiff base residues; other site 458233004636 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 458233004637 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 458233004638 active site 458233004639 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 458233004640 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 458233004641 domain interfaces; other site 458233004642 active site 458233004643 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233004644 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 458233004645 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 458233004646 tRNA; other site 458233004647 putative tRNA binding site [nucleotide binding]; other site 458233004648 putative NADP binding site [chemical binding]; other site 458233004649 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 458233004650 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 458233004651 G1 box; other site 458233004652 GTP/Mg2+ binding site [chemical binding]; other site 458233004653 Switch I region; other site 458233004654 G2 box; other site 458233004655 G3 box; other site 458233004656 Switch II region; other site 458233004657 G4 box; other site 458233004658 G5 box; other site 458233004659 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 458233004660 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 458233004661 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 458233004662 Walker A motif; other site 458233004663 ATP binding site [chemical binding]; other site 458233004664 Walker B motif; other site 458233004665 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 458233004666 trigger factor; Provisional; Region: tig; PRK01490 458233004667 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458233004668 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 458233004669 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 458233004670 NAD-dependent deacetylase; Provisional; Region: PRK00481 458233004671 SIR2 family 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-fam; cd01407 458233004672 NAD+ binding site [chemical binding]; other site 458233004673 substrate binding site [chemical binding]; other site 458233004674 Zn binding site [ion binding]; other site 458233004675 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 458233004676 active site 458233004677 metal binding site [ion binding]; metal-binding site 458233004678 homotetramer interface [polypeptide binding]; other site 458233004679 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 458233004680 active site 458233004681 dimerization interface [polypeptide binding]; other site 458233004682 glutamate racemase; Provisional; Region: PRK00865 458233004683 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458233004684 MarR family; Region: MarR; pfam01047 458233004685 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 458233004686 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 458233004687 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 458233004688 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 458233004689 L-aspartate oxidase; Provisional; Region: PRK06175 458233004690 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458233004691 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 458233004692 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 458233004693 putative Iron-sulfur protein interface [polypeptide binding]; other site 458233004694 proximal heme binding site [chemical binding]; other site 458233004695 distal heme binding site [chemical binding]; other site 458233004696 putative dimer interface [polypeptide binding]; other site 458233004697 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 458233004698 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 458233004699 GIY-YIG motif/motif A; other site 458233004700 active site 458233004701 catalytic site [active] 458233004702 putative DNA binding site [nucleotide binding]; other site 458233004703 metal binding site [ion binding]; metal-binding site 458233004704 UvrB/uvrC motif; Region: UVR; pfam02151 458233004705 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 458233004706 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 458233004707 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458233004708 catalytic residues [active] 458233004709 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 458233004710 MutS domain III; Region: MutS_III; pfam05192 458233004711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233004712 Walker A/P-loop; other site 458233004713 ATP binding site [chemical binding]; other site 458233004714 Q-loop/lid; other site 458233004715 ABC transporter signature motif; other site 458233004716 Walker B; other site 458233004717 D-loop; other site 458233004718 H-loop/switch region; other site 458233004719 Smr domain; Region: Smr; pfam01713 458233004720 hypothetical protein; Provisional; Region: PRK08609 458233004721 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 458233004722 active site 458233004723 primer binding site [nucleotide binding]; other site 458233004724 NTP binding site [chemical binding]; other site 458233004725 metal binding triad [ion binding]; metal-binding site 458233004726 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 458233004727 active site 458233004728 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 458233004729 Colicin V production protein; Region: Colicin_V; pfam02674 458233004730 ribonuclease HIII; Provisional; Region: PRK00996 458233004731 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 458233004732 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 458233004733 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233004734 active site 458233004735 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 458233004736 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 458233004737 putative tRNA-binding site [nucleotide binding]; other site 458233004738 B3/4 domain; Region: B3_4; pfam03483 458233004739 tRNA synthetase B5 domain; Region: B5; smart00874 458233004740 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 458233004741 dimer interface [polypeptide binding]; other site 458233004742 motif 1; other site 458233004743 motif 3; other site 458233004744 motif 2; other site 458233004745 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 458233004746 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 458233004747 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 458233004748 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 458233004749 dimer interface [polypeptide binding]; other site 458233004750 motif 1; other site 458233004751 active site 458233004752 motif 2; other site 458233004753 motif 3; other site 458233004754 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 458233004755 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 458233004756 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 458233004757 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 458233004758 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458233004759 MarR family; Region: MarR_2; pfam12802 458233004760 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 458233004761 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 458233004762 dimer interface [polypeptide binding]; other site 458233004763 PYR/PP interface [polypeptide binding]; other site 458233004764 TPP binding site [chemical binding]; other site 458233004765 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233004766 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 458233004767 TPP-binding site [chemical binding]; other site 458233004768 dimer interface [polypeptide binding]; other site 458233004769 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458233004770 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458233004771 TrkA-C domain; Region: TrkA_C; pfam02080 458233004772 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458233004773 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 458233004774 S-adenosylmethionine binding site [chemical binding]; other site 458233004775 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233004776 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 458233004777 oligomer interface [polypeptide binding]; other site 458233004778 active site 458233004779 metal binding site [ion binding]; metal-binding site 458233004780 Predicted integral membrane protein [Function unknown]; Region: COG5505 458233004781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 458233004782 MOSC domain; Region: MOSC; pfam03473 458233004783 3-alpha domain; Region: 3-alpha; pfam03475 458233004784 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 458233004785 active site 458233004786 SAM binding site [chemical binding]; other site 458233004787 homodimer interface [polypeptide binding]; other site 458233004788 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 458233004789 [2Fe-2S] cluster binding site [ion binding]; other site 458233004790 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 458233004791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458233004792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233004793 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 458233004794 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 458233004795 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458233004796 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 458233004797 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 458233004798 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 458233004799 putative active site [active] 458233004800 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 458233004801 active site 458233004802 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 458233004803 23S rRNA binding site [nucleotide binding]; other site 458233004804 L21 binding site [polypeptide binding]; other site 458233004805 L13 binding site [polypeptide binding]; other site 458233004806 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 458233004807 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 458233004808 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 458233004809 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 458233004810 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 458233004811 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 458233004812 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 458233004813 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 458233004814 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 458233004815 active site 458233004816 dimer interface [polypeptide binding]; other site 458233004817 motif 1; other site 458233004818 motif 2; other site 458233004819 motif 3; other site 458233004820 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 458233004821 anticodon binding site; other site 458233004822 primosomal protein DnaI; Reviewed; Region: PRK08939 458233004823 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 458233004824 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 458233004825 Walker A motif; other site 458233004826 ATP binding site [chemical binding]; other site 458233004827 Walker B motif; other site 458233004828 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 458233004829 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 458233004830 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 458233004831 ATP cone domain; Region: ATP-cone; pfam03477 458233004832 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 458233004833 active site 458233004834 catalytic triad [active] 458233004835 oxyanion hole [active] 458233004836 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 458233004837 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 458233004838 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 458233004839 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 458233004840 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458233004841 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 458233004842 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 458233004843 CoA-binding site [chemical binding]; other site 458233004844 ATP-binding [chemical binding]; other site 458233004845 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 458233004846 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 458233004847 DNA binding site [nucleotide binding] 458233004848 catalytic residue [active] 458233004849 H2TH interface [polypeptide binding]; other site 458233004850 putative catalytic residues [active] 458233004851 turnover-facilitating residue; other site 458233004852 intercalation triad [nucleotide binding]; other site 458233004853 8OG recognition residue [nucleotide binding]; other site 458233004854 putative reading head residues; other site 458233004855 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 458233004856 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458233004857 DNA polymerase I; Provisional; Region: PRK05755 458233004858 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458233004859 active site 458233004860 metal binding site 1 [ion binding]; metal-binding site 458233004861 putative 5' ssDNA interaction site; other site 458233004862 metal binding site 3; metal-binding site 458233004863 metal binding site 2 [ion binding]; metal-binding site 458233004864 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458233004865 putative DNA binding site [nucleotide binding]; other site 458233004866 putative metal binding site [ion binding]; other site 458233004867 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 458233004868 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 458233004869 active site 458233004870 DNA binding site [nucleotide binding] 458233004871 catalytic site [active] 458233004872 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458233004873 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 458233004874 dimer interface [polypeptide binding]; other site 458233004875 phosphorylation site [posttranslational modification] 458233004876 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 458233004877 ATP binding site [chemical binding]; other site 458233004878 Mg2+ binding site [ion binding]; other site 458233004879 G-X-G motif; other site 458233004880 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233004881 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 458233004882 active site 458233004883 phosphorylation site [posttranslational modification] 458233004884 intermolecular recognition site; other site 458233004885 dimerization interface [polypeptide binding]; other site 458233004886 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 458233004887 DNA binding site [nucleotide binding] 458233004888 malate dehydrogenase; Reviewed; Region: PRK06223 458233004889 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 458233004890 NAD(P) binding site [chemical binding]; other site 458233004891 dimer interface [polypeptide binding]; other site 458233004892 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233004893 substrate binding site [chemical binding]; other site 458233004894 isocitrate dehydrogenase; Reviewed; Region: PRK07006 458233004895 isocitrate dehydrogenase; Validated; Region: PRK07362 458233004896 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 458233004897 dimer interface [polypeptide binding]; other site 458233004898 Citrate synthase; Region: Citrate_synt; pfam00285 458233004899 active site 458233004900 citrylCoA binding site [chemical binding]; other site 458233004901 oxalacetate/citrate binding site [chemical binding]; other site 458233004902 coenzyme A binding site [chemical binding]; other site 458233004903 catalytic triad [active] 458233004904 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 458233004905 pyruvate kinase; Provisional; Region: PRK06354 458233004906 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 458233004907 domain interfaces; other site 458233004908 active site 458233004909 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 458233004910 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 458233004911 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 458233004912 active site 458233004913 ADP/pyrophosphate binding site [chemical binding]; other site 458233004914 dimerization interface [polypeptide binding]; other site 458233004915 allosteric effector site; other site 458233004916 fructose-1,6-bisphosphate binding site; other site 458233004917 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 458233004918 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 458233004919 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 458233004920 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 458233004921 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 458233004922 Transcriptional regulators [Transcription]; Region: FadR; COG2186 458233004923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233004924 DNA-binding site [nucleotide binding]; DNA binding site 458233004925 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 458233004926 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 458233004927 active site 458233004928 PHP Thumb interface [polypeptide binding]; other site 458233004929 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 458233004930 generic binding surface I; other site 458233004931 generic binding surface II; other site 458233004932 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 458233004933 DHH family; Region: DHH; pfam01368 458233004934 DHHA1 domain; Region: DHHA1; pfam02272 458233004935 YtpI-like protein; Region: YtpI; pfam14007 458233004936 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 458233004937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233004938 DNA-binding site [nucleotide binding]; DNA binding site 458233004939 DRTGG domain; Region: DRTGG; pfam07085 458233004940 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 458233004941 metal-dependent hydrolase; Provisional; Region: PRK00685 458233004942 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 458233004943 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458233004944 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458233004945 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 458233004946 active site 458233004947 CutC family; Region: CutC; cl01218 458233004948 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 458233004949 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 458233004950 hexamer interface [polypeptide binding]; other site 458233004951 ligand binding site [chemical binding]; other site 458233004952 putative active site [active] 458233004953 NAD(P) binding site [chemical binding]; other site 458233004954 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 458233004955 Ligand Binding Site [chemical binding]; other site 458233004956 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 458233004957 propionate/acetate kinase; Provisional; Region: PRK12379 458233004958 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 458233004959 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 458233004960 S-adenosylmethionine binding site [chemical binding]; other site 458233004961 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 458233004962 dimer interface [polypeptide binding]; other site 458233004963 catalytic triad [active] 458233004964 peroxidatic and resolving cysteines [active] 458233004965 RDD family; Region: RDD; pfam06271 458233004966 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458233004967 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 458233004968 tandem repeat interface [polypeptide binding]; other site 458233004969 oligomer interface [polypeptide binding]; other site 458233004970 active site residues [active] 458233004971 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03501 458233004972 ATP-NAD kinase; Region: NAD_kinase; pfam01513 458233004973 hypothetical protein; Provisional; Region: PRK10621 458233004974 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458233004975 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 458233004976 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458233004977 active site 458233004978 catalytic site [active] 458233004979 metal binding site [ion binding]; metal-binding site 458233004980 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 458233004981 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 458233004982 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 458233004983 Ligand Binding Site [chemical binding]; other site 458233004984 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 458233004985 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 458233004986 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233004987 catalytic residue [active] 458233004988 septation ring formation regulator EzrA; Provisional; Region: PRK04778 458233004989 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 458233004990 GAF domain; Region: GAF_2; pfam13185 458233004991 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 458233004992 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 458233004993 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 458233004994 RNA binding surface [nucleotide binding]; other site 458233004995 OsmC-like protein; Region: OsmC; cl00767 458233004996 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458233004997 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458233004998 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233004999 Integrase core domain; Region: rve; pfam00665 458233005000 Integrase core domain; Region: rve_3; cl15866 458233005001 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233005002 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233005003 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 458233005004 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 458233005005 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233005006 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 458233005007 active site 458233005008 DNA binding site [nucleotide binding] 458233005009 Int/Topo IB signature motif; other site 458233005010 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 458233005011 dimerization interface [polypeptide binding]; other site 458233005012 putative DNA binding site [nucleotide binding]; other site 458233005013 putative Zn2+ binding site [ion binding]; other site 458233005014 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 458233005015 Cadmium resistance transporter; Region: Cad; pfam03596 458233005016 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 458233005017 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458233005018 active sites [active] 458233005019 tetramer interface [polypeptide binding]; other site 458233005020 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 458233005021 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458233005022 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458233005023 putative acyl-acceptor binding pocket; other site 458233005024 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458233005025 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 458233005026 protein binding site [polypeptide binding]; other site 458233005027 Repair protein; Region: Repair_PSII; pfam04536 458233005028 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 458233005029 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 458233005030 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 458233005031 active site 458233005032 HIGH motif; other site 458233005033 dimer interface [polypeptide binding]; other site 458233005034 KMSKS motif; other site 458233005035 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 458233005036 RNA binding surface [nucleotide binding]; other site 458233005037 Transglycosylase; Region: Transgly; pfam00912 458233005038 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 458233005039 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 458233005040 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 458233005041 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 458233005042 Potassium binding sites [ion binding]; other site 458233005043 Cesium cation binding sites [ion binding]; other site 458233005044 acetyl-CoA synthetase; Provisional; Region: PRK04319 458233005045 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 458233005046 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 458233005047 active site 458233005048 acyl-activating enzyme (AAE) consensus motif; other site 458233005049 putative CoA binding site [chemical binding]; other site 458233005050 AMP binding site [chemical binding]; other site 458233005051 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 458233005052 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 458233005053 FOG: CBS domain [General function prediction only]; Region: COG0517 458233005054 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 458233005055 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458233005056 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 458233005057 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 458233005058 active site 458233005059 Zn binding site [ion binding]; other site 458233005060 catabolite control protein A; Region: ccpA; TIGR01481 458233005061 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233005062 DNA binding site [nucleotide binding] 458233005063 domain linker motif; other site 458233005064 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233005065 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 458233005066 Chorismate mutase type II; Region: CM_2; cl00693 458233005067 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 458233005068 YtxH-like protein; Region: YtxH; pfam12732 458233005069 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 458233005070 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 458233005071 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233005072 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233005073 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233005074 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 458233005075 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458233005076 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 458233005077 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 458233005078 putative tRNA-binding site [nucleotide binding]; other site 458233005079 hypothetical protein; Provisional; Region: PRK13668 458233005080 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 458233005081 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458233005082 catalytic residues [active] 458233005083 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 458233005084 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 458233005085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458233005086 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 458233005087 Walker A/P-loop; other site 458233005088 ATP binding site [chemical binding]; other site 458233005089 Q-loop/lid; other site 458233005090 ABC transporter signature motif; other site 458233005091 Walker B; other site 458233005092 D-loop; other site 458233005093 H-loop/switch region; other site 458233005094 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 458233005095 dimer interface [polypeptide binding]; other site 458233005096 conserved gate region; other site 458233005097 putative PBP binding loops; other site 458233005098 ABC-ATPase subunit interface; other site 458233005099 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458233005100 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 458233005101 substrate binding pocket [chemical binding]; other site 458233005102 membrane-bound complex binding site; other site 458233005103 hinge residues; other site 458233005104 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233005105 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 458233005106 oligomer interface [polypeptide binding]; other site 458233005107 active site 458233005108 metal binding site [ion binding]; metal-binding site 458233005109 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 458233005110 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 458233005111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005112 homodimer interface [polypeptide binding]; other site 458233005113 catalytic residue [active] 458233005114 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 458233005115 S-adenosylmethionine binding site [chemical binding]; other site 458233005116 Phosphotransferase enzyme family; Region: APH; pfam01636 458233005117 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 458233005118 active site 458233005119 substrate binding site [chemical binding]; other site 458233005120 ATP binding site [chemical binding]; other site 458233005121 dipeptidase PepV; Reviewed; Region: PRK07318 458233005122 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 458233005123 active site 458233005124 metal binding site [ion binding]; metal-binding site 458233005125 YtxH-like protein; Region: YtxH; pfam12732 458233005126 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233005127 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 458233005128 active site 458233005129 uracil binding [chemical binding]; other site 458233005130 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458233005131 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 458233005132 HI0933-like protein; Region: HI0933_like; pfam03486 458233005133 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458233005134 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 458233005135 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458233005136 HIGH motif; other site 458233005137 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458233005138 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458233005139 active site 458233005140 KMSKS motif; other site 458233005141 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 458233005142 tRNA binding surface [nucleotide binding]; other site 458233005143 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 458233005144 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233005145 putative substrate translocation pore; other site 458233005146 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 458233005147 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458233005148 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 458233005149 MarR family; Region: MarR_2; cl17246 458233005150 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458233005151 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458233005152 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 458233005153 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 458233005154 trimer interface [polypeptide binding]; other site 458233005155 putative metal binding site [ion binding]; other site 458233005156 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 458233005157 dimer interface [polypeptide binding]; other site 458233005158 FMN binding site [chemical binding]; other site 458233005159 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458233005160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005161 Coenzyme A binding pocket [chemical binding]; other site 458233005162 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 458233005163 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 458233005164 motif II; other site 458233005165 Helix-turn-helix domain; Region: HTH_28; pfam13518 458233005166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 458233005167 Helix-turn-helix domain; Region: HTH_28; pfam13518 458233005168 HTH-like domain; Region: HTH_21; pfam13276 458233005169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 458233005170 Integrase core domain; Region: rve; pfam00665 458233005171 Integrase core domain; Region: rve_2; pfam13333 458233005172 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 458233005173 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 458233005174 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233005175 active site 458233005176 nucleotide binding site [chemical binding]; other site 458233005177 HIGH motif; other site 458233005178 KMSKS motif; other site 458233005179 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 458233005180 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 458233005181 Proline dehydrogenase; Region: Pro_dh; cl03282 458233005182 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 458233005183 homopentamer interface [polypeptide binding]; other site 458233005184 active site 458233005185 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 458233005186 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 458233005187 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 458233005188 dimerization interface [polypeptide binding]; other site 458233005189 active site 458233005190 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 458233005191 Lumazine binding domain; Region: Lum_binding; pfam00677 458233005192 Lumazine binding domain; Region: Lum_binding; pfam00677 458233005193 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 458233005194 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 458233005195 catalytic motif [active] 458233005196 Zn binding site [ion binding]; other site 458233005197 RibD C-terminal domain; Region: RibD_C; pfam01872 458233005198 imidazolonepropionase; Validated; Region: PRK09356 458233005199 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 458233005200 active site 458233005201 urocanate hydratase; Provisional; Region: PRK05414 458233005202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458233005203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458233005204 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 458233005205 dimerization interface [polypeptide binding]; other site 458233005206 formimidoylglutamase; Provisional; Region: PRK13775 458233005207 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 458233005208 putative active site [active] 458233005209 putative metal binding site [ion binding]; other site 458233005210 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 458233005211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 458233005212 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 458233005213 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 458233005214 Walker A/P-loop; other site 458233005215 ATP binding site [chemical binding]; other site 458233005216 Q-loop/lid; other site 458233005217 ABC transporter signature motif; other site 458233005218 Walker B; other site 458233005219 D-loop; other site 458233005220 H-loop/switch region; other site 458233005221 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 458233005222 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 458233005223 dimer interface [polypeptide binding]; other site 458233005224 conserved gate region; other site 458233005225 putative PBP binding loops; other site 458233005226 ABC-ATPase subunit interface; other site 458233005227 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 458233005228 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 458233005229 dimer interface [polypeptide binding]; other site 458233005230 conserved gate region; other site 458233005231 putative PBP binding loops; other site 458233005232 ABC-ATPase subunit interface; other site 458233005233 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 458233005234 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 458233005235 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458233005236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005237 Coenzyme A binding pocket [chemical binding]; other site 458233005238 Staphylococcal nuclease homologues; Region: SNc; smart00318 458233005239 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 458233005240 Catalytic site; other site 458233005241 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 458233005242 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458233005243 Domain of unknown function DUF21; Region: DUF21; pfam01595 458233005244 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 458233005245 Transporter associated domain; Region: CorC_HlyC; smart01091 458233005246 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233005247 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 458233005248 DNA binding residues [nucleotide binding] 458233005249 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 458233005250 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458233005251 NAD binding site [chemical binding]; other site 458233005252 catalytic Zn binding site [ion binding]; other site 458233005253 structural Zn binding site [ion binding]; other site 458233005254 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458233005255 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458233005256 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 458233005257 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 458233005258 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 458233005259 putative dimer interface [polypeptide binding]; other site 458233005260 metal-dependent hydrolase; Provisional; Region: PRK13291 458233005261 DinB superfamily; Region: DinB_2; pfam12867 458233005262 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 458233005263 additional DNA contacts [nucleotide binding]; other site 458233005264 mismatch recognition site; other site 458233005265 active site 458233005266 zinc binding site [ion binding]; other site 458233005267 DNA intercalation site [nucleotide binding]; other site 458233005268 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 458233005269 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 458233005270 cofactor binding site; other site 458233005271 DNA binding site [nucleotide binding] 458233005272 substrate interaction site [chemical binding]; other site 458233005273 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 458233005274 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 458233005275 putative active site [active] 458233005276 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 458233005277 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 458233005278 hypothetical protein; Provisional; Region: PRK05463 458233005279 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 458233005280 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 458233005281 dimerization interface [polypeptide binding]; other site 458233005282 putative DNA binding site [nucleotide binding]; other site 458233005283 putative Zn2+ binding site [ion binding]; other site 458233005284 arsenical pump membrane protein; Provisional; Region: PRK15445 458233005285 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 458233005286 transmembrane helices; other site 458233005287 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458233005288 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 458233005289 active site 458233005290 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 458233005291 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 458233005292 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 458233005293 putative active site [active] 458233005294 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458233005295 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233005296 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458233005297 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 458233005298 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458233005299 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 458233005300 carboxyltransferase (CT) interaction site; other site 458233005301 biotinylation site [posttranslational modification]; other site 458233005302 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 458233005303 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 458233005304 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 458233005305 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 458233005306 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 458233005307 putative active site [active] 458233005308 catalytic triad [active] 458233005309 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 458233005310 PA/protease domain interface [polypeptide binding]; other site 458233005311 putative integrin binding motif; other site 458233005312 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 458233005313 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 458233005314 active site 458233005315 intersubunit interactions; other site 458233005316 catalytic residue [active] 458233005317 CrcB-like protein; Region: CRCB; pfam02537 458233005318 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 458233005319 Nuclease-related domain; Region: NERD; pfam08378 458233005320 S-adenosylmethionine synthetase; Validated; Region: PRK05250 458233005321 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 458233005322 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 458233005323 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 458233005324 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 458233005325 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 458233005326 active site 458233005327 substrate-binding site [chemical binding]; other site 458233005328 metal-binding site [ion binding] 458233005329 ATP binding site [chemical binding]; other site 458233005330 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458233005331 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458233005332 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 458233005333 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_8; cd04665 458233005334 nudix motif; other site 458233005335 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 458233005336 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 458233005337 metal binding site [ion binding]; metal-binding site 458233005338 substrate binding pocket [chemical binding]; other site 458233005339 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 458233005340 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 458233005341 acyl-activating enzyme (AAE) consensus motif; other site 458233005342 putative AMP binding site [chemical binding]; other site 458233005343 putative active site [active] 458233005344 putative CoA binding site [chemical binding]; other site 458233005345 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 458233005346 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 458233005347 substrate binding site [chemical binding]; other site 458233005348 oxyanion hole (OAH) forming residues; other site 458233005349 trimer interface [polypeptide binding]; other site 458233005350 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 458233005351 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 458233005352 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 458233005353 dimer interface [polypeptide binding]; other site 458233005354 tetramer interface [polypeptide binding]; other site 458233005355 PYR/PP interface [polypeptide binding]; other site 458233005356 TPP binding site [chemical binding]; other site 458233005357 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 458233005358 TPP-binding site; other site 458233005359 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458233005360 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 458233005361 UbiA prenyltransferase family; Region: UbiA; pfam01040 458233005362 CHAP domain; Region: CHAP; pfam05257 458233005363 Phage lysis protein, holin; Region: Phage_holin; cl04675 458233005364 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233005365 Phage tail protein; Region: Sipho_tail; cl17486 458233005366 Phage tail protein; Region: Sipho_tail; cl17486 458233005367 Phage-related minor tail protein [Function unknown]; Region: COG5280 458233005368 Phage-related protein [Function unknown]; Region: COG5412 458233005369 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458233005370 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233005371 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 458233005372 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 458233005373 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458233005374 catalytic residue [active] 458233005375 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 458233005376 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 458233005377 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 458233005378 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 458233005379 oligomerization interface [polypeptide binding]; other site 458233005380 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 458233005381 Phage capsid family; Region: Phage_capsid; pfam05065 458233005382 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 458233005383 Phage portal protein; Region: Phage_portal; pfam04860 458233005384 Phage-related protein [Function unknown]; Region: COG4695; cl01923 458233005385 Phage Terminase; Region: Terminase_1; pfam03354 458233005386 Phage terminase, small subunit; Region: Terminase_4; pfam05119 458233005387 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 458233005388 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 458233005389 active site 458233005390 YopX protein; Region: YopX; pfam09643 458233005391 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 458233005392 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 458233005393 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458233005394 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 458233005395 dimer interface [polypeptide binding]; other site 458233005396 ssDNA binding site [nucleotide binding]; other site 458233005397 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233005398 Helix-turn-helix domain; Region: HTH_36; pfam13730 458233005399 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233005400 AntA/AntB antirepressor; Region: AntA; cl01430 458233005401 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 458233005402 Domain of unknown function (DUF771); Region: DUF771; cl09962 458233005403 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233005404 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 458233005405 non-specific DNA binding site [nucleotide binding]; other site 458233005406 salt bridge; other site 458233005407 sequence-specific DNA binding site [nucleotide binding]; other site 458233005408 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 458233005409 Catalytic site [active] 458233005410 HIRAN domain; Region: HIRAN; pfam08797 458233005411 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 458233005412 active site 458233005413 DNA binding site [nucleotide binding] 458233005414 Int/Topo IB signature motif; other site 458233005415 ComK protein; Region: ComK; cl11560 458233005416 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 458233005417 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 458233005418 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 458233005419 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 458233005420 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458233005421 hydroxyglutarate oxidase; Provisional; Region: PRK11728 458233005422 ferrochelatase; Provisional; Region: PRK12435 458233005423 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 458233005424 C-terminal domain interface [polypeptide binding]; other site 458233005425 active site 458233005426 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 458233005427 active site 458233005428 N-terminal domain interface [polypeptide binding]; other site 458233005429 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 458233005430 substrate binding site [chemical binding]; other site 458233005431 active site 458233005432 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 458233005433 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458233005434 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 458233005435 Walker A/P-loop; other site 458233005436 ATP binding site [chemical binding]; other site 458233005437 Q-loop/lid; other site 458233005438 ABC transporter signature motif; other site 458233005439 Walker B; other site 458233005440 D-loop; other site 458233005441 H-loop/switch region; other site 458233005442 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 458233005443 HIT family signature motif; other site 458233005444 catalytic residue [active] 458233005445 YtxH-like protein; Region: YtxH; cl02079 458233005446 transcriptional regulator Hpr; Provisional; Region: PRK13777 458233005447 MarR family; Region: MarR; pfam01047 458233005448 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 458233005449 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 458233005450 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 458233005451 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 458233005452 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 458233005453 generic binding surface II; other site 458233005454 generic binding surface I; other site 458233005455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233005456 Zn2+ binding site [ion binding]; other site 458233005457 Mg2+ binding site [ion binding]; other site 458233005458 Uncharacterized conserved protein [Function unknown]; Region: COG4717 458233005459 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458233005460 active site 458233005461 metal binding site [ion binding]; metal-binding site 458233005462 DNA binding site [nucleotide binding] 458233005463 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 458233005464 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 458233005465 FeS/SAM binding site; other site 458233005466 hypothetical protein; Provisional; Region: PRK13676 458233005467 Protein of unknown function (DUF445); Region: DUF445; pfam04286 458233005468 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233005469 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 458233005470 non-specific DNA binding site [nucleotide binding]; other site 458233005471 salt bridge; other site 458233005472 sequence-specific DNA binding site [nucleotide binding]; other site 458233005473 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458233005474 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458233005475 potential protein location (hypothetical protein) that overlaps protein (proton glutamate symporter ) 458233005476 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233005477 Cation efflux family; Region: Cation_efflux; cl00316 458233005478 potential protein location (hypothetical protein) that overlaps protein (cation efflux protein ) 458233005479 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233005480 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 458233005481 active site 458233005482 phosphorylation site [posttranslational modification] 458233005483 intermolecular recognition site; other site 458233005484 dimerization interface [polypeptide binding]; other site 458233005485 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 458233005486 DNA binding residues [nucleotide binding] 458233005487 dimerization interface [polypeptide binding]; other site 458233005488 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 458233005489 GAF domain; Region: GAF_3; pfam13492 458233005490 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 458233005491 Histidine kinase; Region: HisKA_3; pfam07730 458233005492 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 458233005493 ATP binding site [chemical binding]; other site 458233005494 Mg2+ binding site [ion binding]; other site 458233005495 G-X-G motif; other site 458233005496 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005497 Coenzyme A binding pocket [chemical binding]; other site 458233005498 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458233005499 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 458233005500 putative active site [active] 458233005501 catalytic triad [active] 458233005502 putative dimer interface [polypeptide binding]; other site 458233005503 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458233005504 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458233005505 active site 458233005506 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 458233005507 dimer interface [polypeptide binding]; other site 458233005508 FMN binding site [chemical binding]; other site 458233005509 polyphosphate kinase; Provisional; Region: PRK05443 458233005510 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 458233005511 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 458233005512 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 458233005513 putative domain interface [polypeptide binding]; other site 458233005514 putative active site [active] 458233005515 catalytic site [active] 458233005516 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 458233005517 putative domain interface [polypeptide binding]; other site 458233005518 putative active site [active] 458233005519 catalytic site [active] 458233005520 exopolyphosphatase; Region: exo_poly_only; TIGR03706 458233005521 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 458233005522 nucleotide binding site [chemical binding]; other site 458233005523 fumarate hydratase; Reviewed; Region: fumC; PRK00485 458233005524 Class II fumarases; Region: Fumarase_classII; cd01362 458233005525 active site 458233005526 tetramer interface [polypeptide binding]; other site 458233005527 Nuclease-related domain; Region: NERD; pfam08378 458233005528 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 458233005529 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 458233005530 active site 458233005531 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 458233005532 dimer interface [polypeptide binding]; other site 458233005533 FMN binding site [chemical binding]; other site 458233005534 NADPH bind site [chemical binding]; other site 458233005535 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 458233005536 epoxyqueuosine reductase; Region: TIGR00276 458233005537 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 458233005538 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458233005539 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 458233005540 Walker A/P-loop; other site 458233005541 ATP binding site [chemical binding]; other site 458233005542 Q-loop/lid; other site 458233005543 ABC transporter signature motif; other site 458233005544 Walker B; other site 458233005545 D-loop; other site 458233005546 H-loop/switch region; other site 458233005547 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 458233005548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458233005549 substrate binding pocket [chemical binding]; other site 458233005550 membrane-bound complex binding site; other site 458233005551 hinge residues; other site 458233005552 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 458233005553 dimer interface [polypeptide binding]; other site 458233005554 conserved gate region; other site 458233005555 putative PBP binding loops; other site 458233005556 ABC-ATPase subunit interface; other site 458233005557 aminotransferase A; Validated; Region: PRK07683 458233005558 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 458233005559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005560 homodimer interface [polypeptide binding]; other site 458233005561 catalytic residue [active] 458233005562 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 458233005563 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 458233005564 Clp protease; Region: CLP_protease; pfam00574 458233005565 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458233005566 oligomer interface [polypeptide binding]; other site 458233005567 active site residues [active] 458233005568 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 458233005569 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233005570 putative substrate translocation pore; other site 458233005571 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233005572 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 458233005573 non-specific DNA binding site [nucleotide binding]; other site 458233005574 salt bridge; other site 458233005575 sequence-specific DNA binding site [nucleotide binding]; other site 458233005576 hypothetical protein; Provisional; Region: PRK02935 458233005577 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233005578 metal binding site 2 [ion binding]; metal-binding site 458233005579 putative DNA binding helix; other site 458233005580 metal binding site 1 [ion binding]; metal-binding site 458233005581 dimer interface [polypeptide binding]; other site 458233005582 structural Zn2+ binding site [ion binding]; other site 458233005583 Phosphoglycerate Dehydrogenase, 2-hydroxyacid dehydrogenase family; Region: PGDH_1; cd12155 458233005584 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 458233005585 putative ligand binding site [chemical binding]; other site 458233005586 NAD binding site [chemical binding]; other site 458233005587 catalytic site [active] 458233005588 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 458233005589 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 458233005590 catalytic triad [active] 458233005591 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 458233005592 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 458233005593 inhibitor-cofactor binding pocket; inhibition site 458233005594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005595 catalytic residue [active] 458233005596 Predicted membrane protein [Function unknown]; Region: COG4129 458233005597 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 458233005598 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 458233005599 active site 458233005600 DNA binding site [nucleotide binding] 458233005601 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233005602 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233005603 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 458233005604 Walker A/P-loop; other site 458233005605 ATP binding site [chemical binding]; other site 458233005606 Q-loop/lid; other site 458233005607 ABC transporter signature motif; other site 458233005608 Walker B; other site 458233005609 D-loop; other site 458233005610 H-loop/switch region; other site 458233005611 hypothetical protein; Provisional; Region: PRK13662 458233005612 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 458233005613 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233005614 minor groove reading motif; other site 458233005615 helix-hairpin-helix signature motif; other site 458233005616 substrate binding pocket [chemical binding]; other site 458233005617 active site 458233005618 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 458233005619 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 458233005620 DNA binding and oxoG recognition site [nucleotide binding] 458233005621 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 458233005622 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 458233005623 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 458233005624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233005625 Walker A/P-loop; other site 458233005626 ATP binding site [chemical binding]; other site 458233005627 Q-loop/lid; other site 458233005628 ABC transporter signature motif; other site 458233005629 Walker B; other site 458233005630 D-loop; other site 458233005631 H-loop/switch region; other site 458233005632 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 458233005633 recombination regulator RecX; Provisional; Region: recX; PRK14135 458233005634 glycosyltransferase; Provisional; Region: PRK13481 458233005635 Transglycosylase; Region: Transgly; pfam00912 458233005636 intracellular protease, PfpI family; Region: PfpI; TIGR01382 458233005637 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 458233005638 proposed catalytic triad [active] 458233005639 conserved cys residue [active] 458233005640 TRAM domain; Region: TRAM; pfam01938 458233005641 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 458233005642 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 458233005643 S-adenosylmethionine binding site [chemical binding]; other site 458233005644 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 458233005645 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 458233005646 FeS/SAM binding site; other site 458233005647 YfkB-like domain; Region: YfkB; pfam08756 458233005648 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 458233005649 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 458233005650 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 458233005651 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 458233005652 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 458233005653 active site clefts [active] 458233005654 zinc binding site [ion binding]; other site 458233005655 dimer interface [polypeptide binding]; other site 458233005656 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233005657 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 458233005658 active site 458233005659 phosphorylation site [posttranslational modification] 458233005660 intermolecular recognition site; other site 458233005661 dimerization interface [polypeptide binding]; other site 458233005662 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 458233005663 DNA binding residues [nucleotide binding] 458233005664 dimerization interface [polypeptide binding]; other site 458233005665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458233005666 Histidine kinase; Region: HisKA_3; pfam07730 458233005667 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 458233005668 ATP binding site [chemical binding]; other site 458233005669 Mg2+ binding site [ion binding]; other site 458233005670 G-X-G motif; other site 458233005671 Predicted membrane protein [Function unknown]; Region: COG4758 458233005672 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 458233005673 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 458233005674 active site 458233005675 Predicted membrane protein [Function unknown]; Region: COG4129 458233005676 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 458233005677 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 458233005678 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 458233005679 Hemerythrin-like domain; Region: Hr-like; cd12108 458233005680 Fe binding site [ion binding]; other site 458233005681 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 458233005682 catalytic triad [active] 458233005683 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 458233005684 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233005685 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 458233005686 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 458233005687 Ferritin-like domain; Region: Ferritin; pfam00210 458233005688 ferroxidase diiron center [ion binding]; other site 458233005689 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 458233005690 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 458233005691 G1 box; other site 458233005692 GTP/Mg2+ binding site [chemical binding]; other site 458233005693 Switch I region; other site 458233005694 G2 box; other site 458233005695 G3 box; other site 458233005696 Switch II region; other site 458233005697 G4 box; other site 458233005698 G5 box; other site 458233005699 Nucleoside recognition; Region: Gate; pfam07670 458233005700 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 458233005701 Nucleoside recognition; Region: Gate; pfam07670 458233005702 Uncharacterized membrane protein [Function unknown]; Region: COG3949 458233005703 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 458233005704 active site 458233005705 catalytic site [active] 458233005706 substrate binding site [chemical binding]; other site 458233005707 BRCA1 C Terminus (BRCT) domain; Region: BRCT; pfam00533 458233005708 Dimer interface [polypeptide binding]; other site 458233005709 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 458233005710 active site 458233005711 DNA polymerase IV; Validated; Region: PRK02406 458233005712 DNA binding site [nucleotide binding] 458233005713 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 458233005714 TRAM domain; Region: TRAM; cl01282 458233005715 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 458233005716 S-adenosylmethionine binding site [chemical binding]; other site 458233005717 glucose-1-dehydrogenase; Provisional; Region: PRK08936 458233005718 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 458233005719 NAD binding site [chemical binding]; other site 458233005720 homodimer interface [polypeptide binding]; other site 458233005721 active site 458233005722 putative lipid kinase; Reviewed; Region: PRK13337 458233005723 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 458233005724 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 458233005725 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 458233005726 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 458233005727 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 458233005728 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 458233005729 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 458233005730 GatB domain; Region: GatB_Yqey; pfam02637 458233005731 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 458233005732 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 458233005733 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 458233005734 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458233005735 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 458233005736 Na binding site [ion binding]; other site 458233005737 Protein involved in sex pheromone biosynthesis [General function prediction only]; Region: CamS; COG4851 458233005738 N-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_1; cd13441 458233005739 putative dimer interface [polypeptide binding]; other site 458233005740 C-terminal repeat domain of CamS sex pheromone cAM373 precursor; Region: CamS_repeat_2; cd13440 458233005741 putative dimer interface [polypeptide binding]; other site 458233005742 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 458233005743 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 458233005744 nucleotide binding pocket [chemical binding]; other site 458233005745 K-X-D-G motif; other site 458233005746 catalytic site [active] 458233005747 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 458233005748 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 458233005749 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 458233005750 Dimer interface [polypeptide binding]; other site 458233005751 BRCT sequence motif; other site 458233005752 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 458233005753 Part of AAA domain; Region: AAA_19; pfam13245 458233005754 Family description; Region: UvrD_C_2; pfam13538 458233005755 PcrB family; Region: PcrB; pfam01884 458233005756 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 458233005757 substrate binding site [chemical binding]; other site 458233005758 putative active site [active] 458233005759 dimer interface [polypeptide binding]; other site 458233005760 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 458233005761 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 458233005762 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 458233005763 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 458233005764 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 458233005765 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 458233005766 tetramer interface [polypeptide binding]; other site 458233005767 active site 458233005768 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 458233005769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4843 458233005770 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 458233005771 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 458233005772 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 458233005773 homodimer interface [polypeptide binding]; other site 458233005774 NAD binding pocket [chemical binding]; other site 458233005775 ATP binding pocket [chemical binding]; other site 458233005776 Mg binding site [ion binding]; other site 458233005777 active-site loop [active] 458233005778 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 458233005779 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 458233005780 active site 458233005781 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 458233005782 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233005783 putative substrate translocation pore; other site 458233005784 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cl00254 458233005785 active site 458233005786 dimer interface [polypeptide binding]; other site 458233005787 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 458233005788 Isochorismatase family; Region: Isochorismatase; pfam00857 458233005789 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 458233005790 catalytic triad [active] 458233005791 conserved cis-peptide bond; other site 458233005792 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 458233005793 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 458233005794 DHHA2 domain; Region: DHHA2; pfam02833 458233005795 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233005796 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 458233005797 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 458233005798 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 458233005799 NAD(P) binding site [chemical binding]; other site 458233005800 catalytic residues [active] 458233005801 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458233005802 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 458233005803 putative active site [active] 458233005804 catalytic triad [active] 458233005805 putative dimer interface [polypeptide binding]; other site 458233005806 Nuclease-related domain; Region: NERD; pfam08378 458233005807 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 458233005808 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 458233005809 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 458233005810 homodimer interface [polypeptide binding]; other site 458233005811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005812 catalytic residue [active] 458233005813 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 458233005814 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 458233005815 spermidine synthase; Provisional; Region: PRK00811 458233005816 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 458233005817 S-adenosylmethionine binding site [chemical binding]; other site 458233005818 agmatinase; Region: agmatinase; TIGR01230 458233005819 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 458233005820 putative active site [active] 458233005821 Mn binding site [ion binding]; other site 458233005822 YolD-like protein; Region: YolD; pfam08863 458233005823 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233005824 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 458233005825 active site 458233005826 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 458233005827 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 458233005828 nudix motif; other site 458233005829 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458233005830 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 458233005831 active site 458233005832 FMN binding site [chemical binding]; other site 458233005833 substrate binding site [chemical binding]; other site 458233005834 homotetramer interface [polypeptide binding]; other site 458233005835 catalytic residue [active] 458233005836 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 458233005837 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 458233005838 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 458233005839 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 458233005840 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458233005841 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 458233005842 active site 458233005843 Zn binding site [ion binding]; other site 458233005844 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 458233005845 non-specific DNA binding site [nucleotide binding]; other site 458233005846 salt bridge; other site 458233005847 sequence-specific DNA binding site [nucleotide binding]; other site 458233005848 hypothetical protein; Provisional; Region: PRK06753 458233005849 hypothetical protein; Provisional; Region: PRK07236 458233005850 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458233005851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233005852 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233005853 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 458233005854 metal-binding site [ion binding] 458233005855 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233005856 Soluble P-type ATPase [General function prediction only]; Region: COG4087 458233005857 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 458233005858 dimerization interface [polypeptide binding]; other site 458233005859 putative DNA binding site [nucleotide binding]; other site 458233005860 putative Zn2+ binding site [ion binding]; other site 458233005861 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 458233005862 active site 458233005863 metal binding site [ion binding]; metal-binding site 458233005864 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 458233005865 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 458233005866 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458233005867 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 458233005868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458233005869 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233005870 Protein of unknown function (DUF805); Region: DUF805; pfam05656 458233005871 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233005872 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458233005873 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 458233005874 Walker A/P-loop; other site 458233005875 ATP binding site [chemical binding]; other site 458233005876 Q-loop/lid; other site 458233005877 ABC transporter signature motif; other site 458233005878 Walker B; other site 458233005879 D-loop; other site 458233005880 H-loop/switch region; other site 458233005881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005882 Coenzyme A binding pocket [chemical binding]; other site 458233005883 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 458233005884 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458233005885 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 458233005886 active site 458233005887 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458233005888 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 458233005889 dimer interface [polypeptide binding]; other site 458233005890 phosphorylation site [posttranslational modification] 458233005891 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 458233005892 ATP binding site [chemical binding]; other site 458233005893 Mg2+ binding site [ion binding]; other site 458233005894 G-X-G motif; other site 458233005895 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 458233005896 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 458233005897 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233005898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233005899 Walker A/P-loop; other site 458233005900 ATP binding site [chemical binding]; other site 458233005901 Q-loop/lid; other site 458233005902 ABC transporter signature motif; other site 458233005903 Walker B; other site 458233005904 D-loop; other site 458233005905 H-loop/switch region; other site 458233005906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233005907 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 458233005908 active site 458233005909 phosphorylation site [posttranslational modification] 458233005910 intermolecular recognition site; other site 458233005911 dimerization interface [polypeptide binding]; other site 458233005912 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 458233005913 DNA binding site [nucleotide binding] 458233005914 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 458233005915 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 458233005916 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458233005917 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005918 Coenzyme A binding pocket [chemical binding]; other site 458233005919 Lysine efflux permease [General function prediction only]; Region: COG1279 458233005920 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 458233005921 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 458233005922 ring oligomerisation interface [polypeptide binding]; other site 458233005923 ATP/Mg binding site [chemical binding]; other site 458233005924 stacking interactions; other site 458233005925 hinge regions; other site 458233005926 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 458233005927 oligomerisation interface [polypeptide binding]; other site 458233005928 mobile loop; other site 458233005929 roof hairpin; other site 458233005930 CAAX protease self-immunity; Region: Abi; pfam02517 458233005931 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 458233005932 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 458233005933 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 458233005934 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233005935 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 458233005936 active site 458233005937 Zn binding site [ion binding]; other site 458233005938 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 458233005939 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 458233005940 putative metal binding site [ion binding]; other site 458233005941 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 458233005942 active site 458233005943 metal binding site [ion binding]; metal-binding site 458233005944 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 458233005945 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 458233005946 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 458233005947 putative active site [active] 458233005948 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 458233005949 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 458233005950 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 458233005951 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 458233005952 CoA binding domain; Region: CoA_binding; pfam02629 458233005953 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 458233005954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233005955 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458233005956 Walker A/P-loop; other site 458233005957 ATP binding site [chemical binding]; other site 458233005958 Q-loop/lid; other site 458233005959 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233005960 ABC transporter signature motif; other site 458233005961 Walker B; other site 458233005962 D-loop; other site 458233005963 ABC transporter; Region: ABC_tran_2; pfam12848 458233005964 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458233005965 ABC transporter; Region: ABC_tran_2; pfam12848 458233005966 UGMP family protein; Validated; Region: PRK09604 458233005967 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 458233005968 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458233005969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005970 Coenzyme A binding pocket [chemical binding]; other site 458233005971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233005972 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 458233005973 Glycoprotease family; Region: Peptidase_M22; pfam00814 458233005974 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 458233005975 hypothetical protein; Provisional; Region: PRK04351 458233005976 SprT homologues; Region: SprT; cl01182 458233005977 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 458233005978 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 458233005979 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 458233005980 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 458233005981 RNA binding site [nucleotide binding]; other site 458233005982 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 458233005983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458233005984 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458233005985 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 458233005986 DNA binding residues [nucleotide binding] 458233005987 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 458233005988 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 458233005989 ATP binding site [chemical binding]; other site 458233005990 Mg2+ binding site [ion binding]; other site 458233005991 G-X-G motif; other site 458233005992 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 458233005993 anti sigma factor interaction site; other site 458233005994 regulatory phosphorylation site [posttranslational modification]; other site 458233005995 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 458233005996 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 458233005997 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 458233005998 PemK-like protein; Region: PemK; pfam02452 458233005999 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 458233006000 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 458233006001 active site 458233006002 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233006003 dimer interface [polypeptide binding]; other site 458233006004 substrate binding site [chemical binding]; other site 458233006005 catalytic residues [active] 458233006006 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 458233006007 Uncharacterized conserved protein [Function unknown]; Region: COG3402 458233006008 Bacterial PH domain; Region: DUF304; pfam03703 458233006009 Bacterial PH domain; Region: DUF304; pfam03703 458233006010 Bacterial PH domain; Region: DUF304; pfam03703 458233006011 Bacterial PH domain; Region: DUF304; pfam03703 458233006012 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458233006013 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 458233006014 ATP binding site [chemical binding]; other site 458233006015 Mg++ binding site [ion binding]; other site 458233006016 motif III; other site 458233006017 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 458233006018 nucleotide binding region [chemical binding]; other site 458233006019 ATP-binding site [chemical binding]; other site 458233006020 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 458233006021 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233006022 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233006023 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233006024 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 458233006025 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 458233006026 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 458233006027 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 458233006028 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 458233006029 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 458233006030 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 458233006031 putative active site [active] 458233006032 catalytic site [active] 458233006033 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 458233006034 putative active site [active] 458233006035 catalytic site [active] 458233006036 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 458233006037 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233006038 Zn2+ binding site [ion binding]; other site 458233006039 Mg2+ binding site [ion binding]; other site 458233006040 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 458233006041 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 458233006042 thiamine phosphate binding site [chemical binding]; other site 458233006043 active site 458233006044 pyrophosphate binding site [ion binding]; other site 458233006045 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 458233006046 substrate binding site [chemical binding]; other site 458233006047 multimerization interface [polypeptide binding]; other site 458233006048 ATP binding site [chemical binding]; other site 458233006049 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 458233006050 dimer interface [polypeptide binding]; other site 458233006051 substrate binding site [chemical binding]; other site 458233006052 ATP binding site [chemical binding]; other site 458233006053 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 458233006054 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006055 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006056 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 458233006057 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006058 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006059 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 458233006060 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458233006061 catalytic residue [active] 458233006062 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458233006063 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 458233006064 dimer interface [polypeptide binding]; other site 458233006065 ssDNA binding site [nucleotide binding]; other site 458233006066 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233006067 YwpF-like protein; Region: YwpF; pfam14183 458233006068 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 458233006069 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 458233006070 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 458233006071 hinge; other site 458233006072 active site 458233006073 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 458233006074 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 458233006075 gamma subunit interface [polypeptide binding]; other site 458233006076 epsilon subunit interface [polypeptide binding]; other site 458233006077 LBP interface [polypeptide binding]; other site 458233006078 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 458233006079 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 458233006080 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 458233006081 alpha subunit interaction interface [polypeptide binding]; other site 458233006082 Walker A motif; other site 458233006083 ATP binding site [chemical binding]; other site 458233006084 Walker B motif; other site 458233006085 inhibitor binding site; inhibition site 458233006086 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458233006087 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 458233006088 core domain interface [polypeptide binding]; other site 458233006089 delta subunit interface [polypeptide binding]; other site 458233006090 epsilon subunit interface [polypeptide binding]; other site 458233006091 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 458233006092 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 458233006093 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 458233006094 beta subunit interaction interface [polypeptide binding]; other site 458233006095 Walker A motif; other site 458233006096 ATP binding site [chemical binding]; other site 458233006097 Walker B motif; other site 458233006098 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458233006099 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 458233006100 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 458233006101 F0F1 ATP synthase subunit B; Provisional; Region: PRK13453 458233006102 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 458233006103 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 458233006104 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 458233006105 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 458233006106 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 458233006107 active site 458233006108 homodimer interface [polypeptide binding]; other site 458233006109 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233006110 active site 458233006111 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 458233006112 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 458233006113 dimer interface [polypeptide binding]; other site 458233006114 active site 458233006115 glycine-pyridoxal phosphate binding site [chemical binding]; other site 458233006116 folate binding site [chemical binding]; other site 458233006117 hypothetical protein; Provisional; Region: PRK13690 458233006118 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 458233006119 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 458233006120 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458233006121 active site 458233006122 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 458233006123 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 458233006124 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 458233006125 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 458233006126 S-adenosylmethionine binding site [chemical binding]; other site 458233006127 peptide chain release factor 1; Validated; Region: prfA; PRK00591 458233006128 This domain is found in peptide chain release factors; Region: PCRF; smart00937 458233006129 RF-1 domain; Region: RF-1; pfam00472 458233006130 thymidine kinase; Provisional; Region: PRK04296 458233006131 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 458233006132 transcription termination factor Rho; Provisional; Region: rho; PRK09376 458233006133 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 458233006134 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 458233006135 RNA binding site [nucleotide binding]; other site 458233006136 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 458233006137 Walker A motif; other site 458233006138 ATP binding site [chemical binding]; other site 458233006139 Walker B motif; other site 458233006140 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 458233006141 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 458233006142 putative active site [active] 458233006143 Predicted transcriptional regulators [Transcription]; Region: COG1733 458233006144 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 458233006145 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 458233006146 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 458233006147 hinge; other site 458233006148 active site 458233006149 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 458233006150 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 458233006151 intersubunit interface [polypeptide binding]; other site 458233006152 active site 458233006153 zinc binding site [ion binding]; other site 458233006154 Na+ binding site [ion binding]; other site 458233006155 Response regulator receiver domain; Region: Response_reg; pfam00072 458233006156 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 458233006157 active site 458233006158 phosphorylation site [posttranslational modification] 458233006159 intermolecular recognition site; other site 458233006160 dimerization interface [polypeptide binding]; other site 458233006161 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 458233006162 CTP synthetase; Validated; Region: pyrG; PRK05380 458233006163 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 458233006164 Catalytic site [active] 458233006165 active site 458233006166 UTP binding site [chemical binding]; other site 458233006167 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 458233006168 active site 458233006169 putative oxyanion hole; other site 458233006170 catalytic triad [active] 458233006171 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 458233006172 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233006173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233006174 Coenzyme A binding pocket [chemical binding]; other site 458233006175 pantothenate kinase; Provisional; Region: PRK13317 458233006176 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 458233006177 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458233006178 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233006179 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 458233006180 metal binding site [ion binding]; metal-binding site 458233006181 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 458233006182 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458233006183 Methyltransferase domain; Region: Methyltransf_11; pfam08241 458233006184 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458233006185 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 458233006186 dimer interface [polypeptide binding]; other site 458233006187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006188 catalytic residue [active] 458233006189 cystathionine beta-lyase; Provisional; Region: PRK07671 458233006190 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 458233006191 homodimer interface [polypeptide binding]; other site 458233006192 substrate-cofactor binding pocket; other site 458233006193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006194 catalytic residue [active] 458233006195 S-ribosylhomocysteinase; Provisional; Region: PRK02260 458233006196 phosphopentomutase; Provisional; Region: PRK05362 458233006197 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 458233006198 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 458233006199 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458233006200 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458233006201 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 458233006202 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 458233006203 intersubunit interface [polypeptide binding]; other site 458233006204 active site 458233006205 catalytic residue [active] 458233006206 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 458233006207 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 458233006208 DNA binding residues [nucleotide binding] 458233006209 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 458233006210 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 458233006211 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 458233006212 dimerization interface [polypeptide binding]; other site 458233006213 DPS ferroxidase diiron center [ion binding]; other site 458233006214 ion pore; other site 458233006215 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 458233006216 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 458233006217 D-galactonate transporter; Region: 2A0114; TIGR00893 458233006218 putative substrate translocation pore; other site 458233006219 potential frameshift: common BLAST hit: gi|67078218|ref|YP_245838.1| zinc-dependent dehydrogenase 458233006220 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 458233006221 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458233006222 NAD(P) binding site [chemical binding]; other site 458233006223 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 458233006224 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458233006225 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 458233006226 Ligand Binding Site [chemical binding]; other site 458233006227 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233006228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458233006229 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458233006230 MarR family; Region: MarR_2; cl17246 458233006231 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 458233006232 EVE domain; Region: EVE; cl00728 458233006233 Predicted membrane protein [Function unknown]; Region: COG2855 458233006234 Staphylococcal nuclease homologues; Region: SNc; smart00318 458233006235 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 458233006236 Catalytic site; other site 458233006237 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006238 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006239 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458233006240 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458233006241 Surface antigen [General function prediction only]; Region: COG3942 458233006242 CHAP domain; Region: CHAP; pfam05257 458233006243 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 458233006244 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 458233006245 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 458233006246 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 458233006247 Class III ribonucleotide reductase; Region: RNR_III; cd01675 458233006248 effector binding site; other site 458233006249 active site 458233006250 Zn binding site [ion binding]; other site 458233006251 glycine loop; other site 458233006252 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 458233006253 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 458233006254 FeS/SAM binding site; other site 458233006255 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458233006256 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 458233006257 S-adenosylmethionine binding site [chemical binding]; other site 458233006258 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458233006259 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 458233006260 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 458233006261 dimer interface [polypeptide binding]; other site 458233006262 ADP-ribose binding site [chemical binding]; other site 458233006263 active site 458233006264 nudix motif; other site 458233006265 metal binding site [ion binding]; metal-binding site 458233006266 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 458233006267 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 458233006268 ABC-ATPase subunit interface; other site 458233006269 dimer interface [polypeptide binding]; other site 458233006270 putative PBP binding regions; other site 458233006271 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 458233006272 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458233006273 putative binding site residues; other site 458233006274 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 458233006275 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 458233006276 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 458233006277 active site 458233006278 HIGH motif; other site 458233006279 KMSK motif region; other site 458233006280 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 458233006281 tRNA binding surface [nucleotide binding]; other site 458233006282 anticodon binding site; other site 458233006283 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 458233006284 YwhD family; Region: YwhD; pfam08741 458233006285 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 458233006286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233006287 Zn2+ binding site [ion binding]; other site 458233006288 Mg2+ binding site [ion binding]; other site 458233006289 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458233006290 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458233006291 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233006292 Coenzyme A binding pocket [chemical binding]; other site 458233006293 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 458233006294 hypothetical protein; Provisional; Region: PRK06849 458233006295 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458233006296 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 458233006297 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 458233006298 putative heme peroxidase; Provisional; Region: PRK12276 458233006299 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 458233006300 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458233006301 putative ligand binding residues [chemical binding]; other site 458233006302 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 458233006303 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458233006304 Walker A/P-loop; other site 458233006305 ATP binding site [chemical binding]; other site 458233006306 Q-loop/lid; other site 458233006307 ABC transporter signature motif; other site 458233006308 Walker B; other site 458233006309 D-loop; other site 458233006310 H-loop/switch region; other site 458233006311 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 458233006312 ABC-ATPase subunit interface; other site 458233006313 dimer interface [polypeptide binding]; other site 458233006314 putative PBP binding regions; other site 458233006315 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 458233006316 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 458233006317 ABC-ATPase subunit interface; other site 458233006318 dimer interface [polypeptide binding]; other site 458233006319 putative PBP binding regions; other site 458233006320 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 458233006321 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 458233006322 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 458233006323 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 458233006324 ligand binding site [chemical binding]; other site 458233006325 active site 458233006326 UGI interface [polypeptide binding]; other site 458233006327 catalytic site [active] 458233006328 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 458233006329 dimer interface [polypeptide binding]; other site 458233006330 substrate binding site [chemical binding]; other site 458233006331 ATP binding site [chemical binding]; other site 458233006332 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 458233006333 bacillithiol biosynthesis deacetylase BshB2; Region: thiol_BshB2; TIGR04000 458233006334 putative GTP cyclohydrolase; Provisional; Region: PRK13674 458233006335 maltose O-acetyltransferase; Provisional; Region: PRK10092 458233006336 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 458233006337 active site 458233006338 substrate binding site [chemical binding]; other site 458233006339 trimer interface [polypeptide binding]; other site 458233006340 CoA binding site [chemical binding]; other site 458233006341 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 458233006342 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233006343 active site 458233006344 motif I; other site 458233006345 motif II; other site 458233006346 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 458233006347 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 458233006348 nucleoside/Zn binding site; other site 458233006349 dimer interface [polypeptide binding]; other site 458233006350 catalytic motif [active] 458233006351 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 458233006352 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 458233006353 Substrate-binding site [chemical binding]; other site 458233006354 Substrate specificity [chemical binding]; other site 458233006355 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 458233006356 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 458233006357 Substrate-binding site [chemical binding]; other site 458233006358 Substrate specificity [chemical binding]; other site 458233006359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 458233006360 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 458233006361 motif II; other site 458233006362 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 458233006363 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 458233006364 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 458233006365 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 458233006366 homodimer interface [polypeptide binding]; other site 458233006367 substrate-cofactor binding pocket; other site 458233006368 catalytic residue [active] 458233006369 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233006370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233006371 NAD(P) binding site [chemical binding]; other site 458233006372 active site 458233006373 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 458233006374 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 458233006375 substrate-cofactor binding pocket; other site 458233006376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006377 catalytic residue [active] 458233006378 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233006379 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233006380 metal binding site [ion binding]; metal-binding site 458233006381 dimer interface [polypeptide binding]; other site 458233006382 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233006383 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233006384 metal binding site [ion binding]; metal-binding site 458233006385 dimer interface [polypeptide binding]; other site 458233006386 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233006387 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233006388 metal binding site [ion binding]; metal-binding site 458233006389 dimer interface [polypeptide binding]; other site 458233006390 elongation factor Tu; Reviewed; Region: PRK00049 458233006391 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 458233006392 G1 box; other site 458233006393 GEF interaction site [polypeptide binding]; other site 458233006394 GTP/Mg2+ binding site [chemical binding]; other site 458233006395 Switch I region; other site 458233006396 G2 box; other site 458233006397 G3 box; other site 458233006398 Switch II region; other site 458233006399 G4 box; other site 458233006400 G5 box; other site 458233006401 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 458233006402 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 458233006403 Antibiotic Binding Site [chemical binding]; other site 458233006404 elongation factor G; Reviewed; Region: PRK00007 458233006405 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 458233006406 G1 box; other site 458233006407 putative GEF interaction site [polypeptide binding]; other site 458233006408 GTP/Mg2+ binding site [chemical binding]; other site 458233006409 Switch I region; other site 458233006410 G2 box; other site 458233006411 G3 box; other site 458233006412 Switch II region; other site 458233006413 G4 box; other site 458233006414 G5 box; other site 458233006415 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 458233006416 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 458233006417 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 458233006418 30S ribosomal protein S7; Validated; Region: PRK05302 458233006419 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 458233006420 S17 interaction site [polypeptide binding]; other site 458233006421 S8 interaction site; other site 458233006422 16S rRNA interaction site [nucleotide binding]; other site 458233006423 streptomycin interaction site [chemical binding]; other site 458233006424 23S rRNA interaction site [nucleotide binding]; other site 458233006425 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 458233006426 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 458233006427 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 458233006428 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 458233006429 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 458233006430 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 458233006431 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 458233006432 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 458233006433 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 458233006434 G-loop; other site 458233006435 DNA binding site [nucleotide binding] 458233006436 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 458233006437 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 458233006438 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 458233006439 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 458233006440 RPB1 interaction site [polypeptide binding]; other site 458233006441 RPB10 interaction site [polypeptide binding]; other site 458233006442 RPB11 interaction site [polypeptide binding]; other site 458233006443 RPB3 interaction site [polypeptide binding]; other site 458233006444 RPB12 interaction site [polypeptide binding]; other site 458233006445 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458233006446 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 458233006447 S-adenosylmethionine binding site [chemical binding]; other site 458233006448 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 458233006449 core dimer interface [polypeptide binding]; other site 458233006450 peripheral dimer interface [polypeptide binding]; other site 458233006451 L10 interface [polypeptide binding]; other site 458233006452 L11 interface [polypeptide binding]; other site 458233006453 putative EF-Tu interaction site [polypeptide binding]; other site 458233006454 putative EF-G interaction site [polypeptide binding]; other site 458233006455 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 458233006456 23S rRNA interface [nucleotide binding]; other site 458233006457 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 458233006458 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 458233006459 mRNA/rRNA interface [nucleotide binding]; other site 458233006460 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 458233006461 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 458233006462 putative thiostrepton binding site; other site 458233006463 23S rRNA interface [nucleotide binding]; other site 458233006464 L7/L12 interface [polypeptide binding]; other site 458233006465 L25 interface [polypeptide binding]; other site 458233006466 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 458233006467 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 458233006468 putative homodimer interface [polypeptide binding]; other site 458233006469 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 458233006470 heterodimer interface [polypeptide binding]; other site 458233006471 homodimer interface [polypeptide binding]; other site 458233006472 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 458233006473 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 458233006474 YacP-like NYN domain; Region: NYN_YacP; cl01491 458233006475 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 458233006476 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 458233006477 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 458233006478 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 458233006479 dimerization interface [polypeptide binding]; other site 458233006480 active site 458233006481 metal binding site [ion binding]; metal-binding site 458233006482 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 458233006483 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458233006484 active site 458233006485 HIGH motif; other site 458233006486 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458233006487 KMSKS motif; other site 458233006488 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 458233006489 tRNA binding surface [nucleotide binding]; other site 458233006490 anticodon binding site; other site 458233006491 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 458233006492 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 458233006493 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 458233006494 trimer interface [polypeptide binding]; other site 458233006495 active site 458233006496 substrate binding site [chemical binding]; other site 458233006497 CoA binding site [chemical binding]; other site 458233006498 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 458233006499 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458233006500 active site 458233006501 HIGH motif; other site 458233006502 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458233006503 active site 458233006504 KMSKS motif; other site 458233006505 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 458233006506 homotrimer interaction site [polypeptide binding]; other site 458233006507 zinc binding site [ion binding]; other site 458233006508 CDP-binding sites; other site 458233006509 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 458233006510 substrate binding site; other site 458233006511 dimer interface; other site 458233006512 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 458233006513 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 458233006514 putative active site [active] 458233006515 DNA repair protein RadA; Provisional; Region: PRK11823 458233006516 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 458233006517 Walker A motif/ATP binding site; other site 458233006518 ATP binding site [chemical binding]; other site 458233006519 Walker B motif; other site 458233006520 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 458233006521 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 458233006522 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 458233006523 Walker A motif; other site 458233006524 ATP binding site [chemical binding]; other site 458233006525 Walker B motif; other site 458233006526 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 458233006527 Clp amino terminal domain; Region: Clp_N; pfam02861 458233006528 Clp amino terminal domain; Region: Clp_N; pfam02861 458233006529 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 458233006530 Walker A motif; other site 458233006531 ATP binding site [chemical binding]; other site 458233006532 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 458233006533 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 458233006534 ADP binding site [chemical binding]; other site 458233006535 phosphagen binding site; other site 458233006536 substrate specificity loop; other site 458233006537 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 458233006538 UvrB/uvrC motif; Region: UVR; pfam02151 458233006539 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 458233006540 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458233006541 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458233006542 Nucleoside recognition; Region: Gate; pfam07670 458233006543 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458233006544 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 458233006545 dimer interface [polypeptide binding]; other site 458233006546 FMN binding site [chemical binding]; other site 458233006547 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 458233006548 predicted active site [active] 458233006549 catalytic triad [active] 458233006550 pyridoxal biosynthesis lyase PdxS; Provisional; Region: PRK04180 458233006551 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 458233006552 phosphate binding site [ion binding]; other site 458233006553 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 458233006554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233006555 DNA-binding site [nucleotide binding]; DNA binding site 458233006556 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 458233006557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006558 homodimer interface [polypeptide binding]; other site 458233006559 catalytic residue [active] 458233006560 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 458233006561 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 458233006562 dimer interface [polypeptide binding]; other site 458233006563 putative anticodon binding site; other site 458233006564 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 458233006565 motif 1; other site 458233006566 active site 458233006567 motif 2; other site 458233006568 motif 3; other site 458233006569 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 458233006570 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 458233006571 FMN binding site [chemical binding]; other site 458233006572 active site 458233006573 catalytic residues [active] 458233006574 substrate binding site [chemical binding]; other site 458233006575 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 458233006576 catalytic center binding site [active] 458233006577 ATP binding site [chemical binding]; other site 458233006578 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 458233006579 homooctamer interface [polypeptide binding]; other site 458233006580 active site 458233006581 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 458233006582 dihydropteroate synthase; Region: DHPS; TIGR01496 458233006583 substrate binding pocket [chemical binding]; other site 458233006584 dimer interface [polypeptide binding]; other site 458233006585 inhibitor binding site; inhibition site 458233006586 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458233006587 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 458233006588 dimer interface [polypeptide binding]; other site 458233006589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006590 catalytic residue [active] 458233006591 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 458233006592 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 458233006593 dimerization interface [polypeptide binding]; other site 458233006594 domain crossover interface; other site 458233006595 redox-dependent activation switch; other site 458233006596 FtsH Extracellular; Region: FtsH_ext; pfam06480 458233006597 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 458233006598 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 458233006599 Walker A motif; other site 458233006600 ATP binding site [chemical binding]; other site 458233006601 Walker B motif; other site 458233006602 arginine finger; other site 458233006603 Peptidase family M41; Region: Peptidase_M41; pfam01434 458233006604 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 458233006605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233006606 active site 458233006607 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 458233006608 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 458233006609 Ligand Binding Site [chemical binding]; other site 458233006610 TilS substrate C-terminal domain; Region: TilS_C; smart00977 458233006611 hypothetical protein; Provisional; Region: PRK08582 458233006612 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 458233006613 RNA binding site [nucleotide binding]; other site 458233006614 Septum formation initiator; Region: DivIC; pfam04977 458233006615 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 458233006616 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 458233006617 putative SAM binding site [chemical binding]; other site 458233006618 putative homodimer interface [polypeptide binding]; other site 458233006619 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 458233006620 homodimer interface [polypeptide binding]; other site 458233006621 metal binding site [ion binding]; metal-binding site 458233006622 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458233006623 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 458233006624 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 458233006625 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 458233006626 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 458233006627 ATP binding site [chemical binding]; other site 458233006628 putative Mg++ binding site [ion binding]; other site 458233006629 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 458233006630 nucleotide binding region [chemical binding]; other site 458233006631 ATP-binding site [chemical binding]; other site 458233006632 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 458233006633 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 458233006634 putative active site [active] 458233006635 catalytic residue [active] 458233006636 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 458233006637 5S rRNA interface [nucleotide binding]; other site 458233006638 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 458233006639 CTC domain interface [polypeptide binding]; other site 458233006640 L16 interface [polypeptide binding]; other site 458233006641 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 458233006642 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 458233006643 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233006644 active site 458233006645 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 458233006646 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 458233006647 Substrate binding site; other site 458233006648 Mg++ binding site; other site 458233006649 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 458233006650 active site 458233006651 substrate binding site [chemical binding]; other site 458233006652 CoA binding site [chemical binding]; other site 458233006653 regulatory protein SpoVG; Reviewed; Region: PRK13259 458233006654 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 458233006655 homotrimer interaction site [polypeptide binding]; other site 458233006656 putative active site [active] 458233006657 potential frameshift: common BLAST hit: gi|70727514|ref|YP_254430.1| purine operon repressor 458233006658 pur operon repressor; Provisional; Region: PRK09213 458233006659 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233006660 active site 458233006661 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 458233006662 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 458233006663 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 458233006664 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458233006665 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 458233006666 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 458233006667 S-adenosylmethionine binding site [chemical binding]; other site 458233006668 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 458233006669 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 458233006670 putative active site [active] 458233006671 putative metal binding site [ion binding]; other site 458233006672 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 458233006673 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 458233006674 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458233006675 active site 458233006676 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 458233006677 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 458233006678 active site 458233006679 HIGH motif; other site 458233006680 KMSKS motif; other site 458233006681 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 458233006682 tRNA binding surface [nucleotide binding]; other site 458233006683 anticodon binding site; other site 458233006684 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 458233006685 dimer interface [polypeptide binding]; other site 458233006686 putative tRNA-binding site [nucleotide binding]; other site 458233006687 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 458233006688 Predicted methyltransferases [General function prediction only]; Region: COG0313 458233006689 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 458233006690 putative SAM binding site [chemical binding]; other site 458233006691 putative homodimer interface [polypeptide binding]; other site 458233006692 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 458233006693 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 458233006694 S-adenosylmethionine binding site [chemical binding]; other site 458233006695 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 458233006696 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 458233006697 DNA polymerase III subunit delta'; Validated; Region: PRK08058 458233006698 DNA polymerase III subunit delta'; Validated; Region: PRK08485 458233006699 Protein of unknown function (DUF970); Region: DUF970; pfam06153 458233006700 thymidylate kinase; Validated; Region: tmk; PRK00698 458233006701 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 458233006702 TMP-binding site; other site 458233006703 ATP-binding site [chemical binding]; other site 458233006704 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 458233006705 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 458233006706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233006707 catalytic residue [active] 458233006708 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 458233006709 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 458233006710 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 458233006711 active site 458233006712 nucleophile elbow; other site 458233006713 recombination protein RecR; Reviewed; Region: recR; PRK00076 458233006714 RecR protein; Region: RecR; pfam02132 458233006715 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 458233006716 putative active site [active] 458233006717 putative metal-binding site [ion binding]; other site 458233006718 tetramer interface [polypeptide binding]; other site 458233006719 hypothetical protein; Validated; Region: PRK00153 458233006720 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 458233006721 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 458233006722 Walker A motif; other site 458233006723 ATP binding site [chemical binding]; other site 458233006724 Walker B motif; other site 458233006725 arginine finger; other site 458233006726 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 458233006727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233006728 DNA-binding site [nucleotide binding]; DNA binding site 458233006729 UTRA domain; Region: UTRA; pfam07702 458233006730 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233006731 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 458233006732 Ca binding site [ion binding]; other site 458233006733 active site 458233006734 catalytic site [active] 458233006735 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 458233006736 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 458233006737 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 458233006738 active site turn [active] 458233006739 phosphorylation site [posttranslational modification] 458233006740 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 458233006741 GMP synthase; Reviewed; Region: guaA; PRK00074 458233006742 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 458233006743 AMP/PPi binding site [chemical binding]; other site 458233006744 candidate oxyanion hole; other site 458233006745 catalytic triad [active] 458233006746 potential glutamine specificity residues [chemical binding]; other site 458233006747 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 458233006748 ATP Binding subdomain [chemical binding]; other site 458233006749 Ligand Binding sites [chemical binding]; other site 458233006750 Dimerization subdomain; other site 458233006751 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 458233006752 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 458233006753 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 458233006754 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 458233006755 active site 458233006756 xanthine permease; Region: pbuX; TIGR03173 458233006757 Sulfate transporter family; Region: Sulfate_transp; pfam00916 458233006758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458233006759 active site 458233006760 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 458233006761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233006762 Coenzyme A binding pocket [chemical binding]; other site 458233006763 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458233006764 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 458233006765 dimer interface [polypeptide binding]; other site 458233006766 ssDNA binding site [nucleotide binding]; other site 458233006767 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233006768 GTP-binding protein YchF; Reviewed; Region: PRK09601 458233006769 YchF GTPase; Region: YchF; cd01900 458233006770 G1 box; other site 458233006771 GTP/Mg2+ binding site [chemical binding]; other site 458233006772 Switch I region; other site 458233006773 G2 box; other site 458233006774 Switch II region; other site 458233006775 G3 box; other site 458233006776 G4 box; other site 458233006777 G5 box; other site 458233006778 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 458233006779 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458233006780 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458233006781 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 458233006782 ParB-like nuclease domain; Region: ParB; smart00470 458233006783 KorB domain; Region: KorB; pfam08535 458233006784 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233006785 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 458233006786 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 458233006787 ParB-like nuclease domain; Region: ParBc; pfam02195 458233006788 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 458233006789 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 458233006790 S-adenosylmethionine binding site [chemical binding]; other site 458233006791 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 458233006792 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 458233006793 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 458233006794 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 458233006795 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 458233006796 trmE is a tRNA modification GTPase; Region: trmE; cd04164 458233006797 G1 box; other site 458233006798 GTP/Mg2+ binding site [chemical binding]; other site 458233006799 Switch I region; other site 458233006800 G2 box; other site 458233006801 Switch II region; other site 458233006802 G3 box; other site 458233006803 G4 box; other site 458233006804 G5 box; other site 458233006805 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 458233006806 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 458233006807 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 458233006808 G-X-X-G motif; other site 458233006809 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 458233006810 RxxxH motif; other site 458233006811 ribonuclease P; Reviewed; Region: rnpA; PRK00499 458233006812 Replication initiation factor; Region: Rep_trans; pfam02486 458233006813 Domain of unknown function (DUF334); Region: DUF334; pfam03904 458233006814 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 458233006815 Initiator Replication protein; Region: Rep_3; pfam01051 458233006816 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 458233006817 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 458233006818 Initiator Replication protein; Region: Rep_3; pfam01051 458233006819 Replication protein; Region: Rep_1; cl02412