-- dump date 20111121_012941 -- 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 Phage integrase family; Region: Phage_integrase; pfam00589 458233000003 DNA binding site [nucleotide binding] 458233000004 Int/Topo IB signature motif; other site 458233000005 active site 458233000006 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000008 Coenzyme A binding pocket [chemical binding]; other site 458233000009 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233000010 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 458233000011 FeS/SAM binding site; other site 458233000012 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 458233000013 FeS/SAM binding site; other site 458233000014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000015 ATP binding site [chemical binding]; other site 458233000016 substrate interface [chemical binding]; other site 458233000017 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 458233000018 non-specific DNA binding site [nucleotide binding]; other site 458233000019 salt bridge; other site 458233000020 sequence-specific DNA binding site [nucleotide binding]; other site 458233000021 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233000022 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...; Region: ParA; cd02042 458233000023 P-loop; other site 458233000024 Magnesium ion binding site [ion binding]; other site 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...; Region: ParA; cd02042 458233000026 Magnesium ion binding site [ion binding]; other site 458233000027 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 458233000028 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 458233000029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000030 Walker B motif; other site 458233000031 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 458233000032 AAA-like domain; Region: AAA_10; pfam12846 458233000033 Zonular occludens toxin (Zot); Region: Zot; cl01706 458233000034 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458233000035 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233000036 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 458233000037 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233000038 DNA topoisomerase III; Provisional; Region: PRK07726 458233000039 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 458233000040 active site 458233000041 putative interdomain interaction site [polypeptide binding]; other site 458233000042 putative metal-binding site [ion binding]; other site 458233000043 putative nucleotide binding site [chemical binding]; other site 458233000044 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...; Region: TOP1Ac; cd00186 458233000045 domain I; other site 458233000046 DNA binding groove [nucleotide binding] 458233000047 phosphate binding site [ion binding]; other site 458233000048 domain II; other site 458233000049 domain III; other site 458233000050 nucleotide binding site [chemical binding]; other site 458233000051 catalytic site [active] 458233000052 domain IV; other site 458233000053 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 458233000054 Restriction endonuclease; Region: Mrr_cat; cl00747 458233000055 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 458233000056 active site 458233000057 catalytic site [active] 458233000058 putative transposase OrfB; Reviewed; Region: PHA02517 458233000059 Integrase core domain; Region: rve; cl01316 458233000060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 458233000061 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; cl01116 458233000062 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000063 Peptidase family M48; Region: Peptidase_M48; cl12018 458233000064 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233000065 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 458233000066 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 458233000067 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233000068 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233000069 Beta-lactamase; Region: Beta-lactamase; cl01009 458233000070 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 458233000071 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 458233000072 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 458233000073 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 458233000074 SEFIR domain; Region: SEFIR; pfam08357 458233000075 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 458233000076 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 458233000077 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 458233000078 catalytic residues [active] 458233000079 catalytic nucleophile [active] 458233000080 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000081 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000082 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000083 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000084 DNA binding site [nucleotide binding] 458233000085 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 458233000086 DNA-binding interface [nucleotide binding]; DNA binding site 458233000087 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000088 Integrase core domain; Region: rve; cl01316 458233000089 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000090 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233000091 Integrase core domain; Region: rve; cl01316 458233000092 YolD-like protein; Region: YolD; pfam08863 458233000093 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 458233000094 Integrase core domain; Region: rve; cl01316 458233000095 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233000096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233000097 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 458233000098 Phosphotransferase enzyme family; Region: APH; pfam01636 458233000099 active site 458233000100 ATP binding site [chemical binding]; other site 458233000101 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458233000102 active site 458233000103 ATP binding site [chemical binding]; other site 458233000104 substrate binding site [chemical binding]; other site 458233000105 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 458233000106 S-adenosylmethionine binding site [chemical binding]; other site 458233000107 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000108 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 458233000109 catalytic residues [active] 458233000110 catalytic nucleophile [active] 458233000111 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000112 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000113 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000114 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000115 DNA binding site [nucleotide binding] 458233000116 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; cl01116 458233000117 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 458233000118 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 458233000119 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 458233000120 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 458233000121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 458233000122 Integrase core domain; Region: rve; cl01316 458233000123 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 458233000124 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000125 catalytic residues [active] 458233000126 catalytic nucleophile [active] 458233000127 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000128 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000129 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000130 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000131 DNA binding site [nucleotide binding] 458233000132 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 458233000133 multiple promoter invertase; Provisional; Region: mpi; PRK13413 458233000134 catalytic residues [active] 458233000135 catalytic nucleophile [active] 458233000136 Presynaptic Site I dimer interface [polypeptide binding]; other site 458233000137 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458233000138 Synaptic Flat tetramer interface [polypeptide binding]; other site 458233000139 Synaptic Site I dimer interface [polypeptide binding]; other site 458233000140 DNA binding site [nucleotide binding] 458233000141 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; cl01116 458233000142 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 5,10-...; Region: DHFR; cd00209 458233000143 folate binding site [chemical binding]; other site 458233000144 NADP+ binding site [chemical binding]; other site 458233000145 Thymidylate synthase complementing protein; Region: Thy1; cl03630 458233000146 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458233000147 MPN+ (JAMM) motif; other site 458233000148 Zinc-binding site [ion binding]; other site 458233000149 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233000150 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...; Region: ParA; cd02042 458233000151 P-loop; other site 458233000152 Magnesium ion binding site [ion binding]; other site 458233000153 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...; Region: ParA; cd02042 458233000154 Magnesium ion binding site [ion binding]; other site 458233000155 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 458233000156 phosphodiesterase; Provisional; Region: PRK12704 458233000157 Replication protein; Region: Rep_1; cl02412 458233000158 Replication initiation factor; Region: Rep_trans; pfam02486 458233000159 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 458233000160 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 458233000161 hypothetical protein; Validated; Region: PRK06672 458233000162 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...; Region: AAA; cd00009 458233000163 Walker A motif; other site 458233000164 ATP binding site [chemical binding]; other site 458233000165 Walker B motif; other site 458233000166 arginine finger; other site 458233000167 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 458233000168 DnaA box-binding interface [nucleotide binding]; other site 458233000169 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...; Region: beta_clamp; cd00140 458233000170 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 458233000171 putative DNA binding surface [nucleotide binding]; other site 458233000172 dimer interface [polypeptide binding]; other site 458233000173 beta-clamp/clamp loader binding surface; other site 458233000174 beta-clamp/translesion DNA polymerase binding surface; other site 458233000175 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 458233000176 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 458233000177 Walker A/P-loop; other site 458233000178 ATP binding site [chemical binding]; other site 458233000179 Q-loop/lid; other site 458233000180 ABC transporter signature motif; other site 458233000181 Walker B; other site 458233000182 D-loop; other site 458233000183 H-loop/switch region; other site 458233000184 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458233000185 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458233000186 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458233000187 recombination protein F; Reviewed; Region: recF; PRK00064 458233000188 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 458233000189 Walker A/P-loop; other site 458233000190 ATP binding site [chemical binding]; other site 458233000191 Q-loop/lid; other site 458233000192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000193 ABC transporter signature motif; other site 458233000194 Walker B; other site 458233000195 D-loop; other site 458233000196 H-loop/switch region; other site 458233000197 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 458233000198 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 458233000199 Mg2+ binding site [ion binding]; other site 458233000200 G-X-G motif; other site 458233000201 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 458233000202 anchoring element; other site 458233000203 dimer interface [polypeptide binding]; other site 458233000204 ATP binding site [chemical binding]; other site 458233000205 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 458233000206 active site 458233000207 putative metal-binding site [ion binding]; other site 458233000208 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458233000209 DNA gyrase subunit A; Validated; Region: PRK05560 458233000210 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 458233000211 CAP-like domain; other site 458233000212 Active site [active] 458233000213 primary dimer interface [polypeptide binding]; other site 458233000214 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000215 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000216 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000217 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000218 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000219 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233000220 acetolactate synthase; Reviewed; Region: PRK08617 458233000221 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458233000222 PYR/PP interface [polypeptide binding]; other site 458233000223 dimer interface [polypeptide binding]; other site 458233000224 TPP binding site [chemical binding]; other site 458233000225 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233000226 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...; Region: TPP_enzymes; cl01629 458233000227 TPP-binding site [chemical binding]; other site 458233000228 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 458233000229 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 458233000230 putative substrate binding site [chemical binding]; other site 458233000231 putative ATP binding site [chemical binding]; other site 458233000232 seryl-tRNA synthetase; Provisional; Region: PRK05431 458233000233 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 458233000234 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 458233000235 dimer interface [polypeptide binding]; other site 458233000236 active site 458233000237 motif 1; other site 458233000238 motif 2; other site 458233000239 motif 3; other site 458233000240 YceI-like domain; Region: YceI; cl01001 458233000241 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 458233000242 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 458233000243 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 458233000244 DHH family; Region: DHH; pfam01368 458233000245 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 458233000246 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 458233000247 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 458233000248 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 458233000249 replicative DNA helicase; Region: DnaB; TIGR00665 458233000250 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 458233000251 Walker A motif; other site 458233000252 ATP binding site [chemical binding]; other site 458233000253 Walker B motif; other site 458233000254 DNA binding loops [nucleotide binding] 458233000255 adenylosuccinate synthetase; Provisional; Region: PRK01117 458233000256 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 r-...; Region: AdSS; cd03108 458233000257 GDP-binding site [chemical binding]; other site 458233000258 ACT binding site; other site 458233000259 IMP binding site; other site 458233000260 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000261 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000262 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000263 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233000264 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233000265 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 458233000266 active site 458233000267 phosphorylation site [posttranslational modification] 458233000268 intermolecular recognition site; other site 458233000269 dimerization interface [polypeptide binding]; other site 458233000270 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...; Region: trans_reg_C; cd00383 458233000271 DNA binding site [nucleotide binding] 458233000272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 458233000273 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 connected by an extended linker. The...; Region: HAMP; cd06225 458233000274 dimerization interface [polypeptide binding]; other site 458233000275 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 458233000276 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 trans-...; Region: HisKA; cd00082 458233000277 dimer interface [polypeptide binding]; other site 458233000278 phosphorylation site [posttranslational modification] 458233000279 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 458233000280 ATP binding site [chemical binding]; other site 458233000281 Mg2+ binding site [ion binding]; other site 458233000282 G-X-G motif; other site 458233000283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 458233000284 YycH protein; Region: YycH; pfam07435 458233000285 YycH protein; Region: YycI; cl02015 458233000286 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233000287 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 458233000288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000289 Coenzyme A binding pocket [chemical binding]; other site 458233000290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 458233000291 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000292 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233000293 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458233000294 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458233000295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000296 Walker A/P-loop; other site 458233000297 ATP binding site [chemical binding]; other site 458233000298 Q-loop/lid; other site 458233000299 ABC transporter signature motif; other site 458233000300 Walker B; other site 458233000301 D-loop; other site 458233000302 H-loop/switch region; other site 458233000303 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 458233000304 proposed catalytic triad [active] 458233000305 conserved cys residue [active] 458233000306 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458233000307 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 458233000308 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...; Region: Nudix_Hydrolase; cl00447 458233000309 nudix motif; other site 458233000310 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 458233000311 tetramer interface [polypeptide binding]; other site 458233000312 active site 458233000313 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 458233000314 active site 458233000315 dimer interface [polypeptide binding]; other site 458233000316 magnesium binding site [ion binding]; other site 458233000317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000318 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000319 Walker A/P-loop; other site 458233000320 ATP binding site [chemical binding]; other site 458233000321 Q-loop/lid; other site 458233000322 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458233000323 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000324 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 458233000325 Walker A/P-loop; other site 458233000326 ATP binding site [chemical binding]; other site 458233000327 Q-loop/lid; other site 458233000328 ABC transporter signature motif; other site 458233000329 Walker B; other site 458233000330 D-loop; other site 458233000331 H-loop/switch region; other site 458233000332 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 458233000333 TspO/MBR family; Region: TspO_MBR; cl01379 458233000334 Predicted membrane protein [Function unknown]; Region: COG4270 458233000335 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458233000336 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233000337 DNA binding residues [nucleotide binding] 458233000338 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458233000339 potential catalytic triad [active] 458233000340 conserved cys residue [active] 458233000341 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 458233000342 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 458233000343 NAD(P) binding site [chemical binding]; other site 458233000344 putative active site [active] 458233000345 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 458233000346 Prostaglandin dehydrogenases; Region: PGDH; cd05288 458233000347 NAD(P) binding site [chemical binding]; other site 458233000348 substrate binding site [chemical binding]; other site 458233000349 dimer interface [polypeptide binding]; other site 458233000350 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 458233000351 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 458233000352 OsmC-like protein; Region: OsmC; cl00767 458233000353 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458233000354 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000355 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458233000356 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 458233000357 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 458233000358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000359 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 458233000360 NlpC/P60 family; Region: NLPC_P60; cl11438 458233000361 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458233000362 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 458233000363 tetramer interface [polypeptide binding]; other site 458233000364 heme binding pocket [chemical binding]; other site 458233000365 NADPH binding site [chemical binding]; other site 458233000366 glyoxylate reductase; Reviewed; Region: PRK13243 458233000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000368 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 458233000369 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233000370 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458233000371 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458233000372 conserved cys residue [active] 458233000373 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 458233000374 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 458233000375 homodimer interface [polypeptide binding]; other site 458233000376 substrate-cofactor binding pocket; other site 458233000377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233000378 catalytic residue [active] 458233000379 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 458233000380 heme binding pocket [chemical binding]; other site 458233000381 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 458233000382 catalytic residues [active] 458233000383 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 458233000384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000385 Coenzyme A binding pocket [chemical binding]; other site 458233000386 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233000387 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233000388 metal binding site [ion binding]; metal-binding site 458233000389 dimer interface [polypeptide binding]; other site 458233000390 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 458233000391 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 458233000392 TIGR01777 family protein; Region: yfcH 458233000393 putative NAD(P) binding site [chemical binding]; other site 458233000394 putative active site [active] 458233000395 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233000396 Zn binding site [ion binding]; other site 458233000397 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 458233000398 Zn binding site [ion binding]; other site 458233000399 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233000400 Zn binding site [ion binding]; other site 458233000401 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 458233000402 Zn binding site [ion binding]; other site 458233000403 D-lactate dehydrogenase; Validated; Region: PRK08605 458233000404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000405 Predicted esterase [General function prediction only]; Region: COG0400 458233000406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458233000407 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 458233000408 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 458233000409 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 458233000410 Esterase/lipase [General function prediction only]; Region: COG1647 458233000411 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233000412 Amino acid permease; Region: AA_permease; pfam00324 458233000413 hydroperoxidase II; Provisional; Region: katE; PRK11249 458233000414 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 458233000415 tetramer interface [polypeptide binding]; other site 458233000416 heme binding pocket [chemical binding]; other site 458233000417 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 458233000418 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 458233000419 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 458233000420 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458233000421 Protein of unknown function, DUF485; Region: DUF485; cl01231 458233000422 potential frameshift: common BLAST hit: gi|23099897|ref|NP_693363.1| Na(+)-dependent symporter 458233000423 Sodium:solute symporter family; Region: SSF; cl00456 458233000424 Sodium:solute symporter family; Region: SSF; cl00456 458233000425 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233000426 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458233000427 Walker A/P-loop; other site 458233000428 ATP binding site [chemical binding]; other site 458233000429 Q-loop/lid; other site 458233000430 ABC transporter signature motif; other site 458233000431 Walker B; other site 458233000432 D-loop; other site 458233000433 H-loop/switch region; other site 458233000434 FtsX-like permease family; Region: FtsX; pfam02687 458233000435 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233000436 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 458233000437 active site 458233000438 phosphorylation site [posttranslational modification] 458233000439 intermolecular recognition site; other site 458233000440 dimerization interface [polypeptide binding]; other site 458233000441 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...; Region: trans_reg_C; cd00383 458233000442 DNA binding site [nucleotide binding] 458233000443 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 connected by an extended linker. The...; Region: HAMP; cl01054 458233000444 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 trans-...; Region: HisKA; cd00082 458233000445 dimer interface [polypeptide binding]; other site 458233000446 phosphorylation site [posttranslational modification] 458233000447 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 458233000448 ATP binding site [chemical binding]; other site 458233000449 Mg2+ binding site [ion binding]; other site 458233000450 G-X-G motif; other site 458233000451 oxidoreductase; Provisional; Region: PRK07985 458233000452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000453 NAD(P) binding site [chemical binding]; other site 458233000454 active site 458233000455 YibE/F-like protein; Region: YibE_F; cl02259 458233000456 YibE/F-like protein; Region: YibE_F; cl02259 458233000457 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 458233000458 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 458233000459 metal binding site [ion binding]; metal-binding site 458233000460 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233000461 ABC-ATPase subunit interface; other site 458233000462 dimer interface [polypeptide binding]; other site 458233000463 putative PBP binding regions; other site 458233000464 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 458233000465 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 458233000466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000467 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 458233000468 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 458233000469 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 458233000470 peroxiredoxin; Region: AhpC; TIGR03137 458233000471 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...; Region: PRX_Typ2cys; cd03015 458233000472 dimer interface [polypeptide binding]; other site 458233000473 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458233000474 catalytic triad [active] 458233000475 peroxidatic and resolving cysteines [active] 458233000476 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 458233000477 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...; Region: AhpF_NTD_N; cd02974 458233000478 catalytic residue [active] 458233000479 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 458233000480 catalytic residues [active] 458233000481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000482 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 458233000483 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 458233000484 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 458233000485 putative substrate translocation pore; other site 458233000486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000487 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 458233000488 Walker A/P-loop; other site 458233000489 ATP binding site [chemical binding]; other site 458233000490 Q-loop/lid; other site 458233000491 ABC transporter signature motif; other site 458233000492 Walker B; other site 458233000493 D-loop; other site 458233000494 H-loop/switch region; other site 458233000495 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458233000496 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 458233000497 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 458233000498 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 458233000499 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 458233000500 catalytic triad [active] 458233000501 catalytic triad [active] 458233000502 oxyanion hole [active] 458233000503 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 458233000504 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 458233000505 GAF domain; Region: GAF; cl00853 458233000506 Histidine kinase; Region: His_kinase; pfam06580 458233000507 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 458233000508 ATP binding site [chemical binding]; other site 458233000509 Mg2+ binding site [ion binding]; other site 458233000510 G-X-G motif; other site 458233000511 two-component response regulator; Provisional; Region: PRK14084 458233000512 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 458233000513 active site 458233000514 phosphorylation site [posttranslational modification] 458233000515 intermolecular recognition site; other site 458233000516 dimerization interface [polypeptide binding]; other site 458233000517 LytTr DNA-binding domain; Region: LytTR; cl04498 458233000518 LrgA family; Region: LrgA; cl00608 458233000519 LrgB-like family; Region: LrgB; cl00596 458233000520 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233000521 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458233000522 Walker A/P-loop; other site 458233000523 ATP binding site [chemical binding]; other site 458233000524 Q-loop/lid; other site 458233000525 ABC transporter signature motif; other site 458233000526 Walker B; other site 458233000527 D-loop; other site 458233000528 H-loop/switch region; other site 458233000529 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000530 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000531 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233000532 Predicted membrane protein [Function unknown]; Region: COG1511 458233000533 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 458233000534 Predicted membrane protein [Function unknown]; Region: COG1511 458233000535 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458233000536 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 458233000537 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...; Region: ThiF_MoeB_HesA_family; cd00757 458233000538 ATP binding site [chemical binding]; other site 458233000539 substrate interface [chemical binding]; other site 458233000540 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 458233000541 ThiS interaction site; other site 458233000542 putative active site [active] 458233000543 tetramer interface [polypeptide binding]; other site 458233000544 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 458233000545 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 458233000546 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 458233000547 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- (beta-...; Region: TMP_TenI; cd00564 458233000548 thiamine phosphate binding site [chemical binding]; other site 458233000549 active site 458233000550 pyrophosphate binding site [ion binding]; other site 458233000551 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000553 Coenzyme A binding pocket [chemical binding]; other site 458233000554 Integral membrane protein TerC family; Region: TerC; cl10468 458233000555 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458233000556 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 458233000557 FemAB family; Region: FemAB; cl11444 458233000558 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458233000559 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...; Region: TM_PBP2; cd06261 458233000560 dimer interface [polypeptide binding]; other site 458233000561 conserved gate region; other site 458233000562 putative PBP binding loops; other site 458233000563 ABC-ATPase subunit interface; other site 458233000564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458233000565 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458233000566 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458233000567 EamA-like transporter family; Region: EamA; cl01037 458233000568 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 458233000569 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...; Region: TroA-like; cl00262 458233000570 intersubunit interface [polypeptide binding]; other site 458233000571 BioY family; Region: BioY; cl00560 458233000572 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 458233000573 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 458233000574 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 458233000575 [4Fe-4S] binding site [ion binding]; other site 458233000576 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 458233000577 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 458233000578 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 458233000579 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 458233000580 molybdopterin cofactor binding site; other site 458233000581 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 458233000582 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458233000583 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 458233000584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 458233000585 Histidine kinase; Region: HisKA_3; pfam07730 458233000586 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 458233000587 ATP binding site [chemical binding]; other site 458233000588 Mg2+ binding site [ion binding]; other site 458233000589 G-X-G motif; other site 458233000590 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233000591 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 458233000592 active site 458233000593 phosphorylation site [posttranslational modification] 458233000594 intermolecular recognition site; other site 458233000595 dimerization interface [polypeptide binding]; other site 458233000596 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...; Region: LuxR_C_like; cd06170 458233000597 DNA binding residues [nucleotide binding] 458233000598 dimerization interface [polypeptide binding]; other site 458233000599 Uncharacterized conserved protein [Function unknown]; Region: COG3945 458233000600 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458233000601 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 458233000602 putative substrate translocation pore; other site 458233000603 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 458233000604 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...; Region: ThiF_MoeB_HesA_family; cd00757 458233000605 ATP binding site [chemical binding]; other site 458233000606 substrate interface [chemical binding]; other site 458233000607 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 458233000608 MPT binding site; other site 458233000609 trimer interface [polypeptide binding]; other site 458233000610 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...; Region: MoaC_PE; cd01420 458233000611 trimer interface [polypeptide binding]; other site 458233000612 dimer interface [polypeptide binding]; other site 458233000613 putative active site [active] 458233000614 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 458233000615 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 458233000616 dimer interface [polypeptide binding]; other site 458233000617 putative functional site; other site 458233000618 putative MPT binding site; other site 458233000619 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233000620 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 458233000621 MoaE homodimer interface [polypeptide binding]; other site 458233000622 MoaD interaction [polypeptide binding]; other site 458233000623 active site residues [active] 458233000624 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 458233000625 MoaE interaction surface [polypeptide binding]; other site 458233000626 MoeB interaction surface [polypeptide binding]; other site 458233000627 thiocarboxylated glycine; other site 458233000628 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 458233000629 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 458233000630 GTP binding site [chemical binding]; other site 458233000631 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 458233000632 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 458233000633 FeS/SAM binding site; other site 458233000634 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458233000635 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 458233000636 Fatty acid desaturase; Region: FA_desaturase; pfam00487 458233000637 putative di-iron ligands [ion binding]; other site 458233000638 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 458233000639 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 458233000640 putative NAD(P) binding site [chemical binding]; other site 458233000641 active site 458233000642 putative substrate binding site [chemical binding]; other site 458233000643 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 458233000644 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233000645 putative substrate translocation pore; other site 458233000646 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458233000648 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 458233000649 tetramerization interface [polypeptide binding]; other site 458233000650 NAD(P) binding site [chemical binding]; other site 458233000651 catalytic residues [active] 458233000652 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 458233000653 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 458233000654 putative substrate translocation pore; other site 458233000655 Beta-lactamase; Region: Beta-lactamase; cl01009 458233000656 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 458233000657 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 458233000658 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458233000659 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458233000660 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458233000661 L-lactate permease; Region: Lactate_perm; cl00701 458233000662 glycolate transporter; Provisional; Region: PRK09695 458233000663 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 458233000664 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 458233000665 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233000666 NAD binding site [chemical binding]; other site 458233000667 dimer interface [polypeptide binding]; other site 458233000668 substrate binding site [chemical binding]; other site 458233000669 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233000670 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233000671 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233000672 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 458233000673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000674 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458233000675 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458233000676 Walker A/P-loop; other site 458233000677 ATP binding site [chemical binding]; other site 458233000678 Q-loop/lid; other site 458233000679 ABC transporter signature motif; other site 458233000680 Walker B; other site 458233000681 D-loop; other site 458233000682 H-loop/switch region; other site 458233000683 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 458233000684 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233000685 ABC-ATPase subunit interface; other site 458233000686 dimer interface [polypeptide binding]; other site 458233000687 putative PBP binding regions; other site 458233000688 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 458233000689 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233000690 ABC-ATPase subunit interface; other site 458233000691 dimer interface [polypeptide binding]; other site 458233000692 putative PBP binding regions; other site 458233000693 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 458233000694 G1 box; other site 458233000695 GTP/Mg2+ binding site [chemical binding]; other site 458233000696 Switch I region; other site 458233000697 G2 box; other site 458233000698 Switch II region; other site 458233000699 G3 box; other site 458233000700 G4 box; other site 458233000701 G5 box; other site 458233000702 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233000703 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233000704 Transcriptional regulators [Transcription]; Region: FadR; COG2186 458233000705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233000706 DNA-binding site [nucleotide binding]; DNA binding site 458233000707 FCD domain; Region: FCD; cl11656 458233000708 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458233000709 Cysteine-rich domain; Region: CCG; pfam02754 458233000710 Cysteine-rich domain; Region: CCG; pfam02754 458233000711 iron-sulfur cluster-binding protein; Region: TIGR00273 458233000712 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 458233000713 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 458233000714 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 458233000715 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 458233000716 FemAB family; Region: FemAB; cl11444 458233000717 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 458233000718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000719 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458233000720 Protein export membrane protein; Region: SecD_SecF; cl14618 458233000721 Protein export membrane protein; Region: SecD_SecF; cl14618 458233000722 aspartate aminotransferase; Provisional; Region: PRK07681 458233000723 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 458233000724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233000725 homodimer interface [polypeptide binding]; other site 458233000726 catalytic residue [active] 458233000727 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 458233000728 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233000729 putative substrate translocation pore; other site 458233000730 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 458233000731 putative deacylase active site [active] 458233000732 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233000733 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 458233000734 active site 458233000735 metal binding site [ion binding]; metal-binding site 458233000736 Membrane transport protein; Region: Mem_trans; cl09117 458233000737 glucose-1-dehydrogenase; Provisional; Region: PRK08936 458233000738 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 458233000739 NAD binding site [chemical binding]; other site 458233000740 homodimer interface [polypeptide binding]; other site 458233000741 active site 458233000742 Sugar transport protein; Region: Sugar_transport; pfam06800 458233000743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233000744 DNA topoisomerase III; Provisional; Region: PRK07726 458233000745 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 458233000746 active site 458233000747 putative interdomain interaction site [polypeptide binding]; other site 458233000748 putative metal-binding site [ion binding]; other site 458233000749 putative nucleotide binding site [chemical binding]; other site 458233000750 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...; Region: TOP1Ac; cd00186 458233000751 domain I; other site 458233000752 DNA binding groove [nucleotide binding] 458233000753 phosphate binding site [ion binding]; other site 458233000754 domain II; other site 458233000755 domain III; other site 458233000756 nucleotide binding site [chemical binding]; other site 458233000757 catalytic site [active] 458233000758 domain IV; other site 458233000759 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 458233000760 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 458233000761 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; cl09110 458233000762 transmembrane helices; other site 458233000763 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458233000764 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458233000765 Sulfate transporter family; Region: Sulfate_transp; cl00967 458233000766 Permease family; Region: Xan_ur_permease; pfam00860 458233000767 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 458233000768 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 458233000769 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 458233000770 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 458233000771 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 458233000772 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 458233000773 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 458233000774 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 458233000775 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 458233000776 putative translocon binding site; other site 458233000777 protein-rRNA interface [nucleotide binding]; other site 458233000778 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 458233000779 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...; Region: 30S_S3_KH; cd02412 458233000780 G-X-X-G motif; other site 458233000781 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 458233000782 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 458233000783 23S rRNA interface [nucleotide binding]; other site 458233000784 5S rRNA interface [nucleotide binding]; other site 458233000785 putative antibiotic binding site [chemical binding]; other site 458233000786 L25 interface [polypeptide binding]; other site 458233000787 L27 interface [polypeptide binding]; other site 458233000788 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...; Region: Ribosomal_L29_HIP; cd00427 458233000789 23S rRNA interface [nucleotide binding]; other site 458233000790 putative translocon interaction site; other site 458233000791 signal recognition particle (SRP54) interaction site; other site 458233000792 L23 interface [polypeptide binding]; other site 458233000793 trigger factor interaction site; other site 458233000794 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 458233000795 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 458233000796 KOW motif; Region: KOW; cl00354 458233000797 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 458233000798 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 458233000799 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 458233000800 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 458233000801 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 458233000802 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 458233000803 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458233000804 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458233000805 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 458233000806 5S rRNA interface [nucleotide binding]; other site 458233000807 L27 interface [polypeptide binding]; other site 458233000808 23S rRNA interface [nucleotide binding]; other site 458233000809 L5 interface [polypeptide binding]; other site 458233000810 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 458233000811 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 458233000812 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 458233000813 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...; Region: Ribosomal_L30; cd01658 458233000814 23S rRNA binding site [nucleotide binding]; other site 458233000815 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 458233000816 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 458233000817 SecY translocase; Region: SecY; pfam00344 458233000818 adenylate kinase; Reviewed; Region: adk; PRK00279 458233000819 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 458233000820 AMP-binding site [chemical binding]; other site 458233000821 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 458233000822 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 458233000823 rRNA binding site [nucleotide binding]; other site 458233000824 predicted 30S ribosome binding site; other site 458233000825 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 458233000826 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 458233000827 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 458233000828 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 458233000829 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 458233000830 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 458233000831 alphaNTD homodimer interface [polypeptide binding]; other site 458233000832 alphaNTD - beta interaction site [polypeptide binding]; other site 458233000833 alphaNTD - beta' interaction site [polypeptide binding]; other site 458233000834 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 458233000835 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 458233000836 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13635 458233000837 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 458233000838 Walker A/P-loop; other site 458233000839 ATP binding site [chemical binding]; other site 458233000840 Q-loop/lid; other site 458233000841 ABC transporter signature motif; other site 458233000842 Walker B; other site 458233000843 D-loop; other site 458233000844 H-loop/switch region; other site 458233000845 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 458233000846 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 458233000847 Walker A/P-loop; other site 458233000848 ATP binding site [chemical binding]; other site 458233000849 Q-loop/lid; other site 458233000850 ABC transporter signature motif; other site 458233000851 Walker B; other site 458233000852 D-loop; other site 458233000853 H-loop/switch region; other site 458233000854 Cobalt transport protein; Region: CbiQ; cl00463 458233000855 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 458233000856 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 458233000857 dimerization interface 3.5A [polypeptide binding]; other site 458233000858 active site 458233000859 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 458233000860 23S rRNA interface [nucleotide binding]; other site 458233000861 L3 interface [polypeptide binding]; other site 458233000862 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 458233000863 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 458233000864 Phage integrase family; Region: Phage_integrase; pfam00589 458233000865 Int/Topo IB signature motif; other site 458233000866 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233000867 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 458233000868 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233000869 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 458233000870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000871 DNA polymerase III PolC; Validated; Region: polC; PRK00448 458233000872 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233000874 Integrase core domain; Region: rve; cl01316 458233000875 Fibronectin-binding protein (FBP); Region: FBP; pfam07299 458233000876 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 458233000877 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...; Region: AAA; cd00009 458233000878 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 458233000879 Walker A motif; other site 458233000880 ATP binding site [chemical binding]; other site 458233000881 Walker B motif; other site 458233000882 arginine finger; other site 458233000883 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233000884 Integrase core domain; Region: rve; cl01316 458233000885 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 458233000886 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233000887 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; cl11391 458233000888 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 458233000889 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 458233000890 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 458233000891 putative dimer interface [polypeptide binding]; other site 458233000892 catalytic triad [active] 458233000893 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233000894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233000895 Coenzyme A binding pocket [chemical binding]; other site 458233000896 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458233000897 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 458233000898 putative active site [active] 458233000899 putative FMN binding site [chemical binding]; other site 458233000900 putative substrate binding site [chemical binding]; other site 458233000901 putative catalytic residue [active] 458233000902 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 458233000903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233000904 NAD(P) binding site [chemical binding]; other site 458233000905 active site 458233000906 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233000907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000908 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 458233000909 Walker A/P-loop; other site 458233000910 ATP binding site [chemical binding]; other site 458233000911 Q-loop/lid; other site 458233000912 ABC transporter signature motif; other site 458233000913 Walker B; other site 458233000914 D-loop; other site 458233000915 H-loop/switch region; other site 458233000916 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 458233000917 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 458233000918 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 458233000919 NAD(P) binding site [chemical binding]; other site 458233000920 LDH/MDH dimer interface [polypeptide binding]; other site 458233000921 substrate binding site [chemical binding]; other site 458233000922 Sulfate transporter family; Region: Sulfate_transp; cl00967 458233000923 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 458233000924 Ligand Binding Site [chemical binding]; other site 458233000925 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 458233000926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233000927 catalytic residue [active] 458233000928 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 458233000929 substrate binding site [chemical binding]; other site 458233000930 THF binding site; other site 458233000931 zinc-binding site [ion binding]; other site 458233000932 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 458233000933 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 458233000934 metal-binding site [ion binding] 458233000935 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233000936 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 458233000937 metal-binding site [ion binding] 458233000938 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233000939 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; cl11391 458233000940 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 458233000941 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 458233000942 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233000943 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 458233000944 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458233000945 Nuclease-related domain; Region: NERD; pfam08378 458233000946 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 458233000947 DNA binding residues [nucleotide binding] 458233000948 dimer interface [polypeptide binding]; other site 458233000949 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 458233000950 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 458233000951 catalytic triad [active] 458233000952 active site nucleophile [active] 458233000953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233000954 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233000955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233000956 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458233000957 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 458233000958 putative substrate translocation pore; other site 458233000959 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 458233000960 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 458233000961 Protein of unknown function (DUF454); Region: DUF454; cl01063 458233000962 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233000963 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233000964 DNA binding site [nucleotide binding] 458233000965 domain linker motif; other site 458233000966 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233000967 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 458233000968 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233000969 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...; Region: PTS_IIB_glc; cd00212 458233000970 active site turn [active] 458233000971 phosphorylation site [posttranslational modification] 458233000972 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 458233000973 HPr interaction site; other site 458233000974 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233000975 active site 458233000976 phosphorylation site [posttranslational modification] 458233000977 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 458233000978 putative catalytic site [active] 458233000979 putative metal binding site [ion binding]; other site 458233000980 putative phosphate binding site [ion binding]; other site 458233000981 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233000982 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 458233000983 active site 458233000984 phosphorylation site [posttranslational modification] 458233000985 intermolecular recognition site; other site 458233000986 dimerization interface [polypeptide binding]; other site 458233000987 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...; Region: trans_reg_C; cd00383 458233000988 DNA binding site [nucleotide binding] 458233000989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458233000990 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 458233000991 ATP binding site [chemical binding]; other site 458233000992 Mg2+ binding site [ion binding]; other site 458233000993 G-X-G motif; other site 458233000994 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233000995 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 458233000996 Walker A/P-loop; other site 458233000997 ATP binding site [chemical binding]; other site 458233000998 Q-loop/lid; other site 458233000999 ABC transporter signature motif; other site 458233001000 Walker B; other site 458233001001 D-loop; other site 458233001002 H-loop/switch region; other site 458233001003 FtsX-like permease family; Region: FtsX; pfam02687 458233001004 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233001005 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233001006 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; cl11391 458233001007 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458233001008 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 458233001009 ligand binding site [chemical binding]; other site 458233001010 flexible hinge region; other site 458233001011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001012 pyruvate phosphate dikinase; Provisional; Region: PRK09279 458233001013 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 458233001014 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458233001015 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458233001016 Domain of unknown function (DUF299); Region: DUF299; cl00780 458233001017 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 458233001018 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233001019 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 458233001020 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 458233001021 Protein of unknown function, DUF606; Region: DUF606; cl01273 458233001022 Protein of unknown function, DUF606; Region: DUF606; cl01273 458233001023 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233001024 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458233001025 Walker A/P-loop; other site 458233001026 ATP binding site [chemical binding]; other site 458233001027 Q-loop/lid; other site 458233001028 ABC transporter signature motif; other site 458233001029 Walker B; other site 458233001030 D-loop; other site 458233001031 H-loop/switch region; other site 458233001032 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458233001033 Histidine kinase; Region: HisKA_3; pfam07730 458233001034 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458233001035 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233001036 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 458233001037 active site 458233001038 phosphorylation site [posttranslational modification] 458233001039 intermolecular recognition site; other site 458233001040 dimerization interface [polypeptide binding]; other site 458233001041 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...; Region: LuxR_C_like; cd06170 458233001042 DNA binding residues [nucleotide binding] 458233001043 dimerization interface [polypeptide binding]; other site 458233001044 LrgA family; Region: LrgA; cl00608 458233001045 LrgB-like family; Region: LrgB; cl00596 458233001046 ThiC family; Region: ThiC; cl08031 458233001047 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233001048 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233001049 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 458233001050 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458233001051 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 458233001052 putative substrate translocation pore; other site 458233001053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 458233001054 Nucleoside recognition; Region: Gate; cl00486 458233001055 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458233001056 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 458233001057 classical (c) SDRs; Region: SDR_c; cd05233 458233001058 NAD(P) binding site [chemical binding]; other site 458233001059 active site 458233001060 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 458233001061 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 458233001062 putative substrate translocation pore; other site 458233001063 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458233001064 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 458233001065 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 458233001066 active site 458233001067 HlyD family secretion protein; Region: HlyD_2; pfam12700 458233001068 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 458233001069 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 458233001070 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233001071 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 458233001072 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 458233001073 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458233001074 putative substrate translocation pore; other site 458233001075 Arginase family; Region: Arginase; cl00306 458233001076 Cation efflux family; Region: Cation_efflux; cl00316 458233001077 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233001078 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 458233001079 dimerization interface [polypeptide binding]; other site 458233001080 putative DNA binding site [nucleotide binding]; other site 458233001081 putative Zn2+ binding site [ion binding]; other site 458233001082 Uncharacterized conserved protein [Function unknown]; Region: COG1624 458233001083 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 458233001084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 458233001085 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 458233001086 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 UDP-N-...; Region: GlmM; cd05802 458233001087 active site 458233001088 substrate binding site [chemical binding]; other site 458233001089 metal binding site [ion binding]; metal-binding site 458233001090 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 458233001091 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...; Region: GFAT; cd00714 458233001092 glutaminase active site [active] 458233001093 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 458233001094 dimer interface [polypeptide binding]; other site 458233001095 active site 458233001096 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 458233001097 dimer interface [polypeptide binding]; other site 458233001098 active site 458233001099 Esterase/lipase [General function prediction only]; Region: COG1647 458233001100 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233001101 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 458233001102 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233001103 minor groove reading motif; other site 458233001104 helix-hairpin-helix signature motif; other site 458233001105 substrate binding pocket [chemical binding]; other site 458233001106 active site 458233001107 Z1 domain; Region: Z1; pfam10593 458233001108 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233001109 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 458233001110 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 458233001111 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 458233001112 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, 2-...; Region: ribokinase_pfkB_like; cl00192 458233001113 substrate binding site [chemical binding]; other site 458233001114 ATP binding site [chemical binding]; other site 458233001115 Protein of unknown function DUF262; Region: DUF262; cl14890 458233001116 Protein of unknown function DUF262; Region: DUF262; cl14890 458233001117 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 458233001118 GIY-YIG motif/motif A; other site 458233001119 putative active site [active] 458233001120 putative metal binding site [ion binding]; other site 458233001121 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 458233001122 Uncharacterized conserved protein [Function unknown]; Region: COG3410 458233001123 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458233001124 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 458233001125 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 458233001126 putative active site [active] 458233001127 putative NTP binding site [chemical binding]; other site 458233001128 putative nucleic acid binding site [nucleotide binding]; other site 458233001129 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233001130 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 458233001131 putative active site [active] 458233001132 putative metal binding site [ion binding]; other site 458233001133 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 458233001134 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 458233001135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001136 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 458233001137 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 458233001138 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 458233001139 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...; Region: TM_PBP2; cl00427 458233001140 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233001141 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...; Region: TM_PBP2; cd06261 458233001142 dimer interface [polypeptide binding]; other site 458233001143 conserved gate region; other site 458233001144 putative PBP binding loops; other site 458233001145 ABC-ATPase subunit interface; other site 458233001146 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458233001147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001148 Walker A/P-loop; other site 458233001149 ATP binding site [chemical binding]; other site 458233001150 Q-loop/lid; other site 458233001151 ABC transporter signature motif; other site 458233001152 Walker B; other site 458233001153 D-loop; other site 458233001154 H-loop/switch region; other site 458233001155 TOBE domain; Region: TOBE_2; cl01440 458233001156 histidinol-phosphatase; Validated; Region: PRK06740 458233001157 ornithine cyclodeaminase; Validated; Region: PRK08618 458233001158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001159 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 458233001160 metabolite-proton symporter; Region: 2A0106; TIGR00883 458233001161 putative substrate translocation pore; other site 458233001162 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 458233001163 non-specific DNA binding site [nucleotide binding]; other site 458233001164 salt bridge; other site 458233001165 sequence-specific DNA binding site [nucleotide binding]; other site 458233001166 Cupin domain; Region: Cupin_2; cl09118 458233001167 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001168 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001169 DNA binding site [nucleotide binding] 458233001170 domain linker motif; other site 458233001171 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 458233001172 dimerization interface [polypeptide binding]; other site 458233001173 ligand binding site [chemical binding]; other site 458233001174 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 458233001175 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...; Region: ribokinase; cd01174 458233001176 substrate binding site [chemical binding]; other site 458233001177 dimer interface [polypeptide binding]; other site 458233001178 ATP binding site [chemical binding]; other site 458233001179 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 458233001180 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 458233001181 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 458233001182 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 458233001183 active site 458233001184 catalytic residues [active] 458233001185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001186 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 458233001187 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233001188 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...; Region: TM_PBP2; cd06261 458233001189 dimer interface [polypeptide binding]; other site 458233001190 conserved gate region; other site 458233001191 putative PBP binding loops; other site 458233001192 ABC-ATPase subunit interface; other site 458233001193 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 458233001194 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...; Region: TM_PBP2; cd06261 458233001195 dimer interface [polypeptide binding]; other site 458233001196 conserved gate region; other site 458233001197 putative PBP binding loops; other site 458233001198 ABC-ATPase subunit interface; other site 458233001199 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001200 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001201 DNA binding site [nucleotide binding] 458233001202 domain linker motif; other site 458233001203 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233001204 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458233001205 conserved cys residue [active] 458233001206 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233001207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001208 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 458233001209 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233001210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001211 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 458233001212 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 458233001213 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 458233001214 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 458233001215 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 458233001216 Walker A/P-loop; other site 458233001217 ATP binding site [chemical binding]; other site 458233001218 Q-loop/lid; other site 458233001219 ABC transporter signature motif; other site 458233001220 Walker B; other site 458233001221 D-loop; other site 458233001222 H-loop/switch region; other site 458233001223 TOBE domain; Region: TOBE_2; cl01440 458233001224 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233001225 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233001226 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 458233001227 Predicted dehydrogenase [General function prediction only]; Region: COG0579 458233001228 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 458233001229 putative Ca2+ binding sites [ion binding]; other site 458233001230 domain interaction interfaces; other site 458233001231 putative ligand binding motif; other site 458233001232 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 458233001233 metal ion-dependent adhesion site (MIDAS); other site 458233001234 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 458233001235 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 458233001236 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 458233001237 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 458233001238 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 458233001239 active site 458233001240 catalytic site [active] 458233001241 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 458233001242 active site 458233001243 catalytic site [active] 458233001244 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 458233001245 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233001246 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233001247 metal binding site [ion binding]; metal-binding site 458233001248 dimer interface [polypeptide binding]; other site 458233001249 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 458233001250 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 458233001251 putative substrate translocation pore; other site 458233001252 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 458233001253 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001254 Walker A/P-loop; other site 458233001255 ATP binding site [chemical binding]; other site 458233001256 Q-loop/lid; other site 458233001257 ABC transporter signature motif; other site 458233001258 Walker B; other site 458233001259 D-loop; other site 458233001260 H-loop/switch region; other site 458233001261 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458233001262 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233001263 DNA binding site [nucleotide binding] 458233001264 domain linker motif; other site 458233001265 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 458233001266 dimerization interface [polypeptide binding]; other site 458233001267 ligand binding site [chemical binding]; other site 458233001268 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 458233001269 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 458233001270 substrate binding [chemical binding]; other site 458233001271 active site 458233001272 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 458233001273 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 458233001274 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 458233001275 putative substrate binding site [chemical binding]; other site 458233001276 putative ATP binding site [chemical binding]; other site 458233001277 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 458233001278 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...; Region: PTS_IIB_glc; cd00212 458233001279 active site turn [active] 458233001280 phosphorylation site [posttranslational modification] 458233001281 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233001282 biotin synthase; Validated; Region: PRK06256 458233001283 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 458233001284 FeS/SAM binding site; other site 458233001285 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 458233001286 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 458233001287 ATP binding site [chemical binding]; other site 458233001288 putative Mg++ binding site [ion binding]; other site 458233001289 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 458233001290 nucleotide binding region [chemical binding]; other site 458233001291 ATP-binding site [chemical binding]; other site 458233001292 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233001293 M28, and M42; Region: Zinc_peptidase_like; cl14876 458233001294 YeeE/YedE family (DUF395); Region: DUF395; cl01018 458233001295 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 458233001296 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; cl09110 458233001297 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458233001298 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458233001299 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458233001300 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 458233001301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001302 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233001303 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 rhodanese-...; Region: RHOD_Pyr_redox; cd01524 458233001304 active site residue [active] 458233001305 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 two-...; Region: SirA_YedF_YeeD; cl00436 458233001306 CPxP motif; other site 458233001307 DsrE/DsrF-like family; Region: DrsE; cl00672 458233001308 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233001309 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 458233001310 active site residue [active] 458233001311 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 458233001312 AC domain interface; other site 458233001313 catalytic triad [active] 458233001314 AB domain interface; other site 458233001315 putative substrate binding pocket [chemical binding]; other site 458233001316 interchain disulfide; other site 458233001317 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 458233001318 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 458233001319 S-adenosylmethionine binding site [chemical binding]; other site 458233001320 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 458233001321 Predicted dehydrogenase [General function prediction only]; Region: COG0579 458233001322 Membrane transport protein; Region: Mem_trans; cl09117 458233001323 bile acid transporter; Region: bass; TIGR00841 458233001324 Nuclease-related domain; Region: NERD; pfam08378 458233001325 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 458233001326 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458233001327 NAD(P) binding site [chemical binding]; other site 458233001328 catalytic residues [active] 458233001329 NlpC/P60 family; Region: NLPC_P60; cl11438 458233001330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233001331 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 458233001332 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 458233001333 DNA binding site [nucleotide binding] 458233001334 active site 458233001335 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 458233001336 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 458233001337 PhnA protein; Region: PhnA; pfam03831 458233001338 Predicted membrane protein [Function unknown]; Region: COG2311 458233001339 Protein of unknown function (DUF418); Region: DUF418; cl12135 458233001340 Protein of unknown function (DUF418); Region: DUF418; cl12135 458233001341 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458233001342 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 458233001343 putative substrate translocation pore; other site 458233001344 Uncharacterized membrane protein [Function unknown]; Region: COG3949 458233001345 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 458233001346 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233001347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001348 NAD(P) binding site [chemical binding]; other site 458233001349 active site 458233001350 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 458233001351 Phosphate transporter family; Region: PHO4; cl00396 458233001352 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233001353 FCD domain; Region: FCD; cl11656 458233001354 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 458233001355 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 458233001356 N- and C-terminal domain interface [polypeptide binding]; other site 458233001357 putative active site [active] 458233001358 catalytic site [active] 458233001359 metal binding site [ion binding]; metal-binding site 458233001360 carbohydrate binding site [chemical binding]; other site 458233001361 ATP binding site [chemical binding]; other site 458233001362 GntP family permease; Region: GntP_permease; cl15264 458233001363 gluconate transporter; Region: gntP; TIGR00791 458233001364 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 458233001365 Domain of unknown function DUF28; Region: DUF28; cl00361 458233001366 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 458233001367 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 458233001368 dimer interface [polypeptide binding]; other site 458233001369 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458233001370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001371 NAD(P) binding site [chemical binding]; other site 458233001372 active site 458233001373 Predicted transcriptional regulators [Transcription]; Region: COG1725 458233001374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233001375 DNA-binding site [nucleotide binding]; DNA binding site 458233001376 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233001377 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458233001378 Walker A/P-loop; other site 458233001379 ATP binding site [chemical binding]; other site 458233001380 Q-loop/lid; other site 458233001381 ABC transporter signature motif; other site 458233001382 Walker B; other site 458233001383 D-loop; other site 458233001384 H-loop/switch region; other site 458233001385 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 458233001386 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 458233001387 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 458233001388 putative active site [active] 458233001389 putative catalytic site [active] 458233001390 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 458233001391 putative active site [active] 458233001392 putative catalytic site [active] 458233001393 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 458233001394 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 458233001395 Walker A/P-loop; other site 458233001396 ATP binding site [chemical binding]; other site 458233001397 Q-loop/lid; other site 458233001398 ABC transporter signature motif; other site 458233001399 Walker B; other site 458233001400 D-loop; other site 458233001401 H-loop/switch region; other site 458233001402 NIL domain; Region: NIL; cl09633 458233001403 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...; Region: TM_PBP2; cl00427 458233001404 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 458233001405 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 458233001406 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458233001407 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458233001408 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 458233001409 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458233001410 putative substrate translocation pore; other site 458233001411 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233001412 short chain dehydrogenase; Provisional; Region: PRK06701 458233001413 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 458233001414 NAD binding site [chemical binding]; other site 458233001415 metal binding site [ion binding]; metal-binding site 458233001416 active site 458233001417 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...; Region: metallo-dependent_hydrolases; cl00281 458233001418 active site 458233001419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458233001420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001421 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 458233001422 dimerization interface [polypeptide binding]; other site 458233001423 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233001424 synthetase active site [active] 458233001425 NTP binding site [chemical binding]; other site 458233001426 metal binding site [ion binding]; metal-binding site 458233001427 sugar efflux transporter; Region: 2A0120; TIGR00899 458233001428 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 458233001429 putative substrate translocation pore; other site 458233001430 Protein of unknown function (DUF456); Region: DUF456; cl01069 458233001431 DinB superfamily; Region: DinB_2; cl00986 458233001432 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458233001433 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 458233001434 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 458233001435 FeS/SAM binding site; other site 458233001436 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 458233001437 Pyruvate formate lyase 1; Region: PFL1; cd01678 458233001438 coenzyme A binding site [chemical binding]; other site 458233001439 active site 458233001440 catalytic residues [active] 458233001441 glycine loop; other site 458233001442 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233001443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233001444 Cupin domain; Region: Cupin_2; cl09118 458233001445 High molecular weight glutenin subunit; Region: Glutenin_hmw; pfam03157 458233001446 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458233001447 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458233001448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233001449 Protein of unknown function (DUF523); Region: DUF523; cl00733 458233001450 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 458233001451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001452 Bacitracin resistance protein BacA; Region: BacA; cl00858 458233001453 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233001454 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458233001455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001456 Walker A/P-loop; other site 458233001457 ATP binding site [chemical binding]; other site 458233001458 Q-loop/lid; other site 458233001459 ABC transporter signature motif; other site 458233001460 Walker B; other site 458233001461 D-loop; other site 458233001462 H-loop/switch region; other site 458233001463 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 458233001464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001465 Walker A/P-loop; other site 458233001466 ATP binding site [chemical binding]; other site 458233001467 Q-loop/lid; other site 458233001468 ABC transporter signature motif; other site 458233001469 Walker B; other site 458233001470 D-loop; other site 458233001471 H-loop/switch region; other site 458233001472 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 458233001473 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458233001474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001475 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 458233001476 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233001477 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 458233001478 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 458233001479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001480 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 458233001481 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 458233001482 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 458233001483 putative substrate binding site [chemical binding]; other site 458233001484 putative ATP binding site [chemical binding]; other site 458233001485 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 458233001486 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 458233001487 active site 458233001488 phosphorylation site [posttranslational modification] 458233001489 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...; Region: PTS_IIB_fructose; cd05569 458233001490 P-loop; other site 458233001491 active site 458233001492 phosphorylation site [posttranslational modification] 458233001493 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233001494 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458233001495 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458233001496 Domain of unknown function DUF21; Region: DUF21; pfam01595 458233001497 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 458233001498 Transporter associated domain; Region: CorC_HlyC; cl08393 458233001499 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 458233001500 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233001501 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 458233001502 RNA binding surface [nucleotide binding]; other site 458233001503 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 458233001504 probable active site [active] 458233001505 Protein of unknown function DUF124; Region: DUF124; cl00884 458233001506 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...; Region: Aldo_ket_red; cd06660 458233001507 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 458233001508 active site 458233001509 catalytic tetrad [active] 458233001510 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 458233001511 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; cl15259 458233001512 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 458233001513 active site 458233001514 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 458233001515 Ligand Binding Site [chemical binding]; other site 458233001516 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 458233001517 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458233001518 glutamine binding [chemical binding]; other site 458233001519 catalytic triad [active] 458233001520 aminodeoxychorismate synthase; Provisional; Region: PRK07508 458233001521 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458233001522 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 458233001523 substrate-cofactor binding pocket; other site 458233001524 Aminotransferase class IV; Region: Aminotran_4; pfam01063 458233001525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233001526 catalytic residue [active] 458233001527 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 458233001528 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 458233001529 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 458233001530 MatE; Region: MatE; cl10513 458233001531 Sulfatase; Region: Sulfatase; cl10460 458233001532 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 458233001533 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 458233001534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 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 ABC transporter; Region: ABC_tran_2; pfam12848 458233001543 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233001544 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 458233001545 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 458233001546 ATP binding site [chemical binding]; other site 458233001547 putative Mg++ binding site [ion binding]; other site 458233001548 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 458233001549 nucleotide binding region [chemical binding]; other site 458233001550 ATP-binding site [chemical binding]; other site 458233001551 RQC domain; Region: RQC; cl09632 458233001552 HRDC domain; Region: HRDC; cl02578 458233001553 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 458233001554 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 458233001555 Walker A/P-loop; other site 458233001556 ATP binding site [chemical binding]; other site 458233001557 Q-loop/lid; other site 458233001558 ABC transporter signature motif; other site 458233001559 Walker B; other site 458233001560 D-loop; other site 458233001561 H-loop/switch region; other site 458233001562 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-...; Region: CBS_pair; cl09141 458233001563 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...; Region: TM_PBP2; cd06261 458233001564 dimer interface [polypeptide binding]; other site 458233001565 conserved gate region; other site 458233001566 ABC-ATPase subunit interface; other site 458233001567 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 458233001568 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 458233001569 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 458233001570 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 458233001571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233001572 homodimer interface [polypeptide binding]; other site 458233001573 catalytic residue [active] 458233001574 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl01869 458233001575 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 458233001576 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458233001577 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458233001578 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 458233001579 putative substrate translocation pore; other site 458233001580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 458233001581 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458233001582 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 458233001583 putative substrate translocation pore; other site 458233001584 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 458233001585 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458233001586 EamA-like transporter family; Region: EamA; cl01037 458233001587 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 458233001588 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 458233001589 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 458233001590 Class I ribonucleotide reductase; Region: RNR_I; cd01679 458233001591 active site 458233001592 dimer interface [polypeptide binding]; other site 458233001593 catalytic residues [active] 458233001594 effector binding site; other site 458233001595 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 458233001596 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 458233001597 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 458233001598 dimer interface [polypeptide binding]; other site 458233001599 putative radical transfer pathway; other site 458233001600 diiron center [ion binding]; other site 458233001601 tyrosyl radical; other site 458233001602 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 458233001603 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 458233001604 FAD binding domain; Region: FAD_binding_4; pfam01565 458233001605 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 458233001606 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 458233001607 Protein of unknown function (DUF2847); Region: DUF2847; cl12579 458233001608 Glycerate kinase family; Region: Gly_kinase; cl00841 458233001609 peptidase T; Region: peptidase-T; TIGR01882 458233001610 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 458233001611 metal binding site [ion binding]; metal-binding site 458233001612 dimer interface [polypeptide binding]; other site 458233001613 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458233001614 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458233001615 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 458233001616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458233001617 metal binding site [ion binding]; metal-binding site 458233001618 active site 458233001619 I-site; other site 458233001620 Uncharacterized conserved protein [Function unknown]; Region: COG1284 458233001621 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233001622 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233001623 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233001624 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 458233001625 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 458233001626 Mg++ binding site [ion binding]; other site 458233001627 putative catalytic motif [active] 458233001628 substrate binding site [chemical binding]; other site 458233001629 Uncharacterized conserved protein [Function unknown]; Region: COG1739 458233001630 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 458233001631 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 458233001632 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 458233001633 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 458233001634 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 458233001635 ATP binding site [chemical binding]; other site 458233001636 putative Mg++ binding site [ion binding]; other site 458233001637 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 458233001638 nucleotide binding region [chemical binding]; other site 458233001639 ATP-binding site [chemical binding]; other site 458233001640 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 458233001641 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233001642 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 458233001643 30S subunit binding site; other site 458233001644 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 458233001645 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001646 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 458233001647 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 458233001648 nucleotide binding region [chemical binding]; other site 458233001649 ATP-binding site [chemical binding]; other site 458233001650 SEC-C motif; Region: SEC-C; cl12132 458233001651 peptide chain release factor 2; Validated; Region: prfB; PRK00578 458233001652 RF-1 domain; Region: RF-1; cl02875 458233001653 RF-1 domain; Region: RF-1; cl02875 458233001654 Cytochrome c; Region: Cytochrom_C; cl11414 458233001655 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233001656 putative peptidoglycan binding site; other site 458233001657 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233001658 putative peptidoglycan binding site; other site 458233001659 NlpC/P60 family; Region: NLPC_P60; cl11438 458233001660 NlpC/P60 family; Region: NLPC_P60; cl11438 458233001661 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...; Region: TlpA_like_family; cd02966 458233001662 catalytic residues [active] 458233001663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233001664 excinuclease ABC subunit B; Provisional; Region: PRK05298 458233001665 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 458233001666 ATP binding site [chemical binding]; other site 458233001667 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 458233001668 nucleotide binding region [chemical binding]; other site 458233001669 ATP-binding site [chemical binding]; other site 458233001670 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458233001671 UvrB/uvrC motif; Region: UVR; pfam02151 458233001672 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 458233001673 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458233001674 tRNAHis guanylyltransferase; Region: Thg1; cl01644 458233001675 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 458233001676 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 458233001677 HPr kinase/phosphorylase; Provisional; Region: PRK05428 458233001678 DRTGG domain; Region: DRTGG; cl12147 458233001679 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-...; Region: HprK_C; cd01918 458233001680 Hpr binding site; other site 458233001681 active site 458233001682 homohexamer subunit interaction site [polypeptide binding]; other site 458233001683 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 458233001684 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 6-...; Region: LbH_MAT_like; cd04647 458233001685 trimer interface [polypeptide binding]; other site 458233001686 active site 458233001687 substrate binding site [chemical binding]; other site 458233001688 CoA binding site [chemical binding]; other site 458233001689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001690 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 458233001691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233001693 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 458233001694 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 458233001695 phosphate binding site [ion binding]; other site 458233001696 putative substrate binding pocket [chemical binding]; other site 458233001697 dimer interface [polypeptide binding]; other site 458233001698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 458233001699 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 458233001700 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458233001701 oligomer interface [polypeptide binding]; other site 458233001702 active site residues [active] 458233001703 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 458233001704 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 458233001705 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 458233001706 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 458233001707 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458233001708 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 458233001709 substrate binding site [chemical binding]; other site 458233001710 hinge regions; other site 458233001711 ADP binding site [chemical binding]; other site 458233001712 catalytic site [active] 458233001713 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 458233001714 substrate binding site [chemical binding]; other site 458233001715 dimer interface [polypeptide binding]; other site 458233001716 catalytic triad [active] 458233001717 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 458233001718 Sulfatase; Region: Sulfatase; cl10460 458233001719 enolase; Provisional; Region: eno; PRK00077 458233001720 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 458233001721 dimer interface [polypeptide binding]; other site 458233001722 metal binding site [ion binding]; metal-binding site 458233001723 substrate binding pocket [chemical binding]; other site 458233001724 Preprotein translocase SecG subunit; Region: SecG; cl09123 458233001725 Esterase/lipase [General function prediction only]; Region: COG1647 458233001726 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233001727 ribonuclease R; Region: RNase_R; TIGR02063 458233001728 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 458233001729 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 458233001730 RNB domain; Region: RNB; pfam00773 458233001731 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 458233001732 RNA binding site [nucleotide binding]; other site 458233001733 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 458233001734 SmpB-tmRNA interface; other site 458233001735 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 458233001736 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 458233001737 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458233001738 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458233001739 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458233001740 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458233001741 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 458233001742 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 458233001743 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 458233001744 active site 458233001745 catalytic residue [active] 458233001746 dimer interface [polypeptide binding]; other site 458233001747 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a beta-...; Region: Arsenite_oxidase; cd02135 458233001748 putative FMN binding site [chemical binding]; other site 458233001749 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 458233001750 catalytic residues [active] 458233001751 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 458233001752 putative ArsC-like catalytic residues; other site 458233001753 putative TRX-like catalytic residues [active] 458233001754 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 L-...; Region: GCS_H; cd06848 458233001755 lipoyl attachment site [posttranslational modification]; other site 458233001756 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...; Region: TOPRIM_RNase_M5_like; cd01027 458233001757 putative active site [active] 458233001758 putative metal binding site [ion binding]; other site 458233001759 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 458233001760 catalytic residues [active] 458233001761 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 458233001762 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein; Region: ABC_MetN_methionine_transporter; cd03258 458233001763 Walker A/P-loop; other site 458233001764 ATP binding site [chemical binding]; other site 458233001765 Q-loop/lid; other site 458233001766 ABC transporter signature motif; other site 458233001767 Walker B; other site 458233001768 D-loop; other site 458233001769 H-loop/switch region; other site 458233001770 NIL domain; Region: NIL; cl09633 458233001771 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...; Region: TM_PBP2; cl00427 458233001772 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 458233001773 FeS assembly ATPase SufC; Region: sufC; TIGR01978 458233001774 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 458233001775 Walker A/P-loop; other site 458233001776 ATP binding site [chemical binding]; other site 458233001777 Q-loop/lid; other site 458233001778 ABC transporter signature motif; other site 458233001779 Walker B; other site 458233001780 D-loop; other site 458233001781 H-loop/switch region; other site 458233001782 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 458233001783 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 458233001784 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458233001785 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 458233001786 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233001787 catalytic residue [active] 458233001788 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 458233001789 trimerization site [polypeptide binding]; other site 458233001790 active site 458233001791 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 458233001792 FeS assembly protein SufB; Region: sufB; TIGR01980 458233001793 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 458233001794 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 458233001795 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 458233001796 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 458233001797 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 458233001798 Walker A/P-loop; other site 458233001799 ATP binding site [chemical binding]; other site 458233001800 Q-loop/lid; other site 458233001801 ABC transporter signature motif; other site 458233001802 Walker B; other site 458233001803 D-loop; other site 458233001804 H-loop/switch region; other site 458233001805 Protein of unknown function DUF72; Region: DUF72; cl00777 458233001806 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458233001807 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 458233001808 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 458233001809 active site 458233001810 metal binding site [ion binding]; metal-binding site 458233001811 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458233001812 lipoyl synthase; Provisional; Region: PRK05481 458233001813 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; cl15259 458233001814 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 458233001815 Beta-lactamase; Region: Beta-lactamase; cl01009 458233001816 Beta-lactamase; Region: Beta-lactamase; cl01009 458233001817 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 458233001818 Protein of unknown function DUF86; Region: DUF86; cl01031 458233001819 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 458233001820 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 458233001821 active site 458233001822 motif I; other site 458233001823 motif II; other site 458233001824 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; cl11391 458233001825 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 458233001826 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 458233001827 MBOAT family; Region: MBOAT; cl00738 458233001828 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 458233001829 DltD N-terminal region; Region: DltD_N; pfam04915 458233001830 DltD central region; Region: DltD_M; pfam04918 458233001831 DltD C-terminal region; Region: DltD_C; pfam04914 458233001832 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 458233001833 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233001834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001835 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 458233001836 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458233001837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001838 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...; Region: Nudix_Hydrolase; cd02883 458233001839 nudix motif; other site 458233001840 Predicted permease [General function prediction only]; Region: COG2056 458233001841 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; cl09110 458233001842 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 458233001843 CoenzymeA binding site [chemical binding]; other site 458233001844 subunit interaction site [polypeptide binding]; other site 458233001845 PHB binding site; other site 458233001846 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 458233001847 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 458233001848 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 458233001849 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 458233001850 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 458233001851 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 458233001852 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 458233001853 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 458233001854 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 458233001855 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 458233001856 Kinase associated protein B; Region: KapB; pfam08810 458233001857 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 458233001858 active site 458233001859 general stress protein 13; Validated; Region: PRK08059 458233001860 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 458233001861 RNA binding site [nucleotide binding]; other site 458233001862 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 458233001863 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 458233001864 Glutamate binding site [chemical binding]; other site 458233001865 homodimer interface [polypeptide binding]; other site 458233001866 NAD binding site [chemical binding]; other site 458233001867 catalytic residues [active] 458233001868 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 458233001869 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 458233001870 inhibitor-cofactor binding pocket; inhibition site 458233001871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233001872 catalytic residue [active] 458233001873 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 458233001874 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458233001875 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 458233001876 NAD(P) binding site [chemical binding]; other site 458233001877 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 458233001878 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 458233001879 dimer interface [polypeptide binding]; other site 458233001880 active site 458233001881 metal binding site [ion binding]; metal-binding site 458233001882 argininosuccinate lyase; Provisional; Region: PRK00855 458233001883 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 458233001884 active sites [active] 458233001885 tetramer interface [polypeptide binding]; other site 458233001886 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 458233001887 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 458233001888 ANP binding site [chemical binding]; other site 458233001889 Substrate Binding Site II [chemical binding]; other site 458233001890 Substrate Binding Site I [chemical binding]; other site 458233001891 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 458233001892 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 458233001893 active site 458233001894 dimer interface [polypeptide binding]; other site 458233001895 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 458233001896 dimer interface [polypeptide binding]; other site 458233001897 active site 458233001898 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458233001899 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458233001900 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)...; Region: Peptidase_S24_S26; cd06462 458233001901 Catalytic site [active] 458233001902 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 458233001903 UvrD/REP helicase; Region: UvrD-helicase; cl14126 458233001904 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 458233001905 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 458233001906 helicase-exonuclease AddAB, AddA subunit; Region: addA_Gpos; TIGR02785 458233001907 UvrD/REP helicase; Region: UvrD-helicase; cl14126 458233001908 UvrD/REP helicase; Region: UvrD-helicase; cl14126 458233001909 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458233001910 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 458233001911 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233001912 coenzyme A disulfide reductase; Provisional; Region: PRK13512 458233001913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233001914 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233001915 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 458233001916 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233001917 active site 458233001918 motif I; other site 458233001919 motif II; other site 458233001920 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; cl11391 458233001921 Domain of unknown function DUF59; Region: DUF59; cl00941 458233001922 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 458233001923 ligand binding site [chemical binding]; other site 458233001924 flexible hinge region; other site 458233001925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233001926 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 458233001927 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...; Region: AAA; cd00009 458233001928 Walker A motif; other site 458233001929 ATP binding site [chemical binding]; other site 458233001930 Walker B motif; other site 458233001931 arginine finger; other site 458233001932 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...; Region: AAA; cd00009 458233001933 Walker A motif; other site 458233001934 ATP binding site [chemical binding]; other site 458233001935 Walker B motif; other site 458233001936 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458233001937 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233001938 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 458233001939 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 458233001940 dimer interface [polypeptide binding]; other site 458233001941 active site 458233001942 CoA binding pocket [chemical binding]; other site 458233001943 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 458233001944 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 458233001945 dimer interface [polypeptide binding]; other site 458233001946 active site 458233001947 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 458233001948 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...; Region: TM_PBP2; cd06261 458233001949 dimer interface [polypeptide binding]; other site 458233001950 conserved gate region; other site 458233001951 putative PBP binding loops; other site 458233001952 ABC-ATPase subunit interface; other site 458233001953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 458233001954 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 458233001955 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...; Region: TM_PBP2; cd06261 458233001956 dimer interface [polypeptide binding]; other site 458233001957 conserved gate region; other site 458233001958 putative PBP binding loops; other site 458233001959 ABC-ATPase subunit interface; other site 458233001960 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 458233001961 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458233001962 Walker A/P-loop; other site 458233001963 ATP binding site [chemical binding]; other site 458233001964 Q-loop/lid; other site 458233001965 ABC transporter signature motif; other site 458233001966 Walker B; other site 458233001967 D-loop; other site 458233001968 H-loop/switch region; other site 458233001969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458233001970 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 458233001971 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 458233001972 Walker A/P-loop; other site 458233001973 ATP binding site [chemical binding]; other site 458233001974 Q-loop/lid; other site 458233001975 ABC transporter signature motif; other site 458233001976 Walker B; other site 458233001977 D-loop; other site 458233001978 H-loop/switch region; other site 458233001979 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458233001980 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 458233001981 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 458233001982 peptide binding site [polypeptide binding]; other site 458233001983 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 458233001984 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 458233001985 active site 458233001986 HIGH motif; other site 458233001987 dimer interface [polypeptide binding]; other site 458233001988 KMSKS motif; other site 458233001989 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...; Region: ArsC_Spx; cd03032 458233001990 putative catalytic residues [active] 458233001991 thiol/disulfide switch; other site 458233001992 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 458233001993 Competence protein CoiA-like family; Region: CoiA; cl11541 458233001994 potential frameshift: common BLAST hit: gi|70726958|ref|YP_253872.1| thimet oligopeptidase 458233001995 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233001996 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233001997 Zn binding site [ion binding]; other site 458233001998 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 458233001999 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 458233002000 catalytic residues [active] 458233002001 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...; Region: Trunc_globin; cd00454 458233002002 apolar tunnel; other site 458233002003 heme binding site [chemical binding]; other site 458233002004 dimerization interface [polypeptide binding]; other site 458233002005 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 458233002006 putative active site [active] 458233002007 putative metal binding residues [ion binding]; other site 458233002008 signature motif; other site 458233002009 putative triphosphate binding site [ion binding]; other site 458233002010 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233002011 synthetase active site [active] 458233002012 NTP binding site [chemical binding]; other site 458233002013 metal binding site [ion binding]; metal-binding site 458233002014 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458233002015 ATP-NAD kinase; Region: NAD_kinase; pfam01513 458233002016 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 458233002017 active site 458233002018 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458233002019 MgtE intracellular N domain; Region: MgtE_N; cl15244 458233002020 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 458233002021 Divalent cation transporter; Region: MgtE; cl00786 458233002022 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458233002023 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458233002024 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458233002025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002026 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; cl09110 458233002027 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 458233002028 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 458233002029 NAD binding site [chemical binding]; other site 458233002030 homotetramer interface [polypeptide binding]; other site 458233002031 homodimer interface [polypeptide binding]; other site 458233002032 substrate binding site [chemical binding]; other site 458233002033 active site 458233002034 hypothetical protein; Provisional; Region: PRK13679 458233002035 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 458233002036 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233002037 Putative esterase; Region: Esterase; pfam00756 458233002038 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458233002039 Domain of unknown function DUF20; Region: UPF0118; cl00465 458233002040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233002041 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 458233002042 putative substrate translocation pore; other site 458233002043 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 458233002044 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 458233002045 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 458233002046 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233002047 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233002048 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233002049 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 458233002050 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 458233002051 G1 box; other site 458233002052 putative GEF interaction site [polypeptide binding]; other site 458233002053 GTP/Mg2+ binding site [chemical binding]; other site 458233002054 Switch I region; other site 458233002055 G2 box; other site 458233002056 G3 box; other site 458233002057 Switch II region; other site 458233002058 G4 box; other site 458233002059 G5 box; other site 458233002060 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 458233002061 Integral membrane protein TerC family; Region: TerC; cl10468 458233002062 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 458233002063 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 C-...; Region: PDZ_serine_protease; cd00987 458233002064 protein binding site [polypeptide binding]; other site 458233002065 Cation transport protein; Region: TrkH; cl10514 458233002066 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458233002067 Cation transport protein; Region: TrkH; cl10514 458233002068 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 trans-...; Region: HisKA; cd00082 458233002069 dimer interface [polypeptide binding]; other site 458233002070 phosphorylation site [posttranslational modification] 458233002071 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 458233002072 ATP binding site [chemical binding]; other site 458233002073 Mg2+ binding site [ion binding]; other site 458233002074 G-X-G motif; other site 458233002075 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458233002076 active site 458233002077 metal binding site [ion binding]; metal-binding site 458233002078 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458233002079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233002080 ComK protein; Region: ComK; cl11560 458233002081 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 458233002082 M28, and M42; Region: Zinc_peptidase_like; cl14876 458233002083 metal binding site [ion binding]; metal-binding site 458233002084 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 458233002085 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458233002086 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 458233002087 amidase catalytic site [active] 458233002088 Zn binding residues [ion binding]; other site 458233002089 substrate binding site [chemical binding]; other site 458233002090 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 458233002091 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 458233002092 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 458233002093 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233002094 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 458233002095 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458233002096 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 458233002097 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 458233002098 active site 458233002099 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458233002100 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458233002101 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 458233002102 active site 458233002103 tetramer interface [polypeptide binding]; other site 458233002104 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 458233002105 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 458233002106 Walker A/P-loop; other site 458233002107 ATP binding site [chemical binding]; other site 458233002108 Q-loop/lid; other site 458233002109 ABC transporter signature motif; other site 458233002110 Walker B; other site 458233002111 D-loop; other site 458233002112 H-loop/switch region; other site 458233002113 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233002114 active site 458233002115 nucleotide binding site [chemical binding]; other site 458233002116 HIGH motif; other site 458233002117 KMSKS motif; other site 458233002118 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002119 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 458233002120 putative ADP-binding pocket [chemical binding]; other site 458233002121 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458233002122 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458233002123 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 458233002124 active site 458233002125 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 458233002126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002127 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 458233002128 NAD(P) binding site [chemical binding]; other site 458233002129 active site 458233002130 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233002131 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 458233002132 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233002133 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458233002134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002136 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 458233002137 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458233002138 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002139 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 458233002140 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 458233002141 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 458233002142 Walker A/P-loop; other site 458233002143 ATP binding site [chemical binding]; other site 458233002144 Q-loop/lid; other site 458233002145 ABC transporter signature motif; other site 458233002146 Walker B; other site 458233002147 D-loop; other site 458233002148 H-loop/switch region; other site 458233002149 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 458233002150 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 458233002151 active site 458233002152 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 458233002153 Chain length determinant protein; Region: Wzz; cl01623 458233002154 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 458233002155 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233002156 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 458233002157 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 458233002158 NAD(P) binding site [chemical binding]; other site 458233002159 homodimer interface [polypeptide binding]; other site 458233002160 substrate binding site [chemical binding]; other site 458233002161 active site 458233002162 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 458233002163 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 6-...; Region: LbH_MAT_like; cd04647 458233002164 trimer interface [polypeptide binding]; other site 458233002165 active site 458233002166 substrate binding site [chemical binding]; other site 458233002167 CoA binding site [chemical binding]; other site 458233002168 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233002169 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 458233002170 putative NAD(P) binding site [chemical binding]; other site 458233002171 active site 458233002172 putative substrate binding site [chemical binding]; other site 458233002173 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 458233002174 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458233002175 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458233002176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002177 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 458233002178 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458233002179 putative ADP-binding pocket [chemical binding]; other site 458233002180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002181 NAD(P) binding site [chemical binding]; other site 458233002182 active site 458233002183 Bacterial sugar transferase; Region: Bac_transf; cl00939 458233002184 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 458233002185 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 458233002186 DXD motif; other site 458233002187 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 458233002188 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 458233002189 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 458233002190 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458233002191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233002192 Rrf2 family protein; Region: rrf2_super; TIGR00738 458233002193 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 458233002194 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 458233002195 heme-binding site [chemical binding]; other site 458233002196 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 458233002197 FAD binding pocket [chemical binding]; other site 458233002198 FAD binding motif [chemical binding]; other site 458233002199 phosphate binding motif [ion binding]; other site 458233002200 beta-alpha-beta structure motif; other site 458233002201 NAD binding pocket [chemical binding]; other site 458233002202 Heme binding pocket [chemical binding]; other site 458233002203 Nuclease-related domain; Region: NERD; pfam08378 458233002204 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 458233002205 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 458233002206 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 458233002207 homodimer interface [polypeptide binding]; other site 458233002208 NADP binding site [chemical binding]; other site 458233002209 substrate binding site [chemical binding]; other site 458233002210 AIR carboxylase; Region: AIRC; cl00310 458233002211 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 458233002212 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 458233002213 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002214 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 458233002215 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 458233002216 ATP binding site [chemical binding]; other site 458233002217 active site 458233002218 substrate binding site [chemical binding]; other site 458233002219 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 458233002220 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 458233002221 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 458233002222 putative active site [active] 458233002223 catalytic triad [active] 458233002224 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 458233002225 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 458233002226 dimerization interface [polypeptide binding]; other site 458233002227 ATP binding site [chemical binding]; other site 458233002228 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 458233002229 dimerization interface [polypeptide binding]; other site 458233002230 ATP binding site [chemical binding]; other site 458233002231 amidophosphoribosyltransferase; Provisional; Region: PRK07272 458233002232 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 458233002233 active site 458233002234 tetramer interface [polypeptide binding]; other site 458233002235 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233002236 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233002237 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 458233002238 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...; Region: PurM; cd02196 458233002239 dimerization interface [polypeptide binding]; other site 458233002240 putative ATP binding site [chemical binding]; other site 458233002241 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 458233002242 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 458233002243 active site 458233002244 substrate binding site [chemical binding]; other site 458233002245 cosubstrate binding site; other site 458233002246 catalytic site [active] 458233002247 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 458233002248 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 458233002249 purine monophosphate binding site [chemical binding]; other site 458233002250 dimer interface [polypeptide binding]; other site 458233002251 putative catalytic residues [active] 458233002252 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 458233002253 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 458233002254 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 458233002255 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 458233002256 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002257 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 458233002258 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 458233002259 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 458233002260 S-adenosylmethionine binding site [chemical binding]; other site 458233002261 Domain of unknown function (DUF697); Region: DUF697; cl12064 458233002262 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 458233002263 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458233002264 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458233002265 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 458233002266 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 458233002267 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233002268 putative active site [active] 458233002269 putative metal binding site [ion binding]; other site 458233002270 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 458233002271 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 458233002272 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458233002273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002274 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; cl09110 458233002275 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 458233002276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233002277 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458233002278 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 458233002279 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233002280 active site 458233002281 motif I; other site 458233002282 motif II; other site 458233002283 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; cl11391 458233002284 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(...; Region: Pep_deformylase; cd00487 458233002285 active site 458233002286 catalytic residues [active] 458233002287 metal binding site [ion binding]; metal-binding site 458233002288 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 458233002289 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 458233002290 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 458233002291 TPP-binding site [chemical binding]; other site 458233002292 tetramer interface [polypeptide binding]; other site 458233002293 heterodimer interface [polypeptide binding]; other site 458233002294 phosphorylation loop region [posttranslational modification] 458233002295 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 458233002296 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 458233002297 alpha subunit interface [polypeptide binding]; other site 458233002298 TPP binding site [chemical binding]; other site 458233002299 heterodimer interface [polypeptide binding]; other site 458233002300 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233002301 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 458233002302 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 458233002303 E3 interaction surface; other site 458233002304 lipoyl attachment site [posttranslational modification]; other site 458233002305 e3 binding domain; Region: E3_binding; pfam02817 458233002306 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 458233002307 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 458233002308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002310 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233002311 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 458233002312 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 458233002313 non-specific DNA binding site [nucleotide binding]; other site 458233002314 salt bridge; other site 458233002315 sequence-specific DNA binding site [nucleotide binding]; other site 458233002316 Cupin domain; Region: Cupin_2; cl09118 458233002317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458233002318 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues...; Region: ABC_PotA_N; cd03300 458233002319 Walker A/P-loop; other site 458233002320 ATP binding site [chemical binding]; other site 458233002321 Q-loop/lid; other site 458233002322 ABC transporter signature motif; other site 458233002323 Walker B; other site 458233002324 D-loop; other site 458233002325 H-loop/switch region; other site 458233002326 TOBE domain; Region: TOBE_2; cl01440 458233002327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233002328 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...; Region: TM_PBP2; cl00427 458233002329 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...; Region: TM_PBP2; cd06261 458233002330 putative PBP binding loops; other site 458233002331 dimer interface [polypeptide binding]; other site 458233002332 ABC-ATPase subunit interface; other site 458233002333 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458233002334 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...; Region: TM_PBP2; cd06261 458233002335 dimer interface [polypeptide binding]; other site 458233002336 conserved gate region; other site 458233002337 putative PBP binding loops; other site 458233002338 ABC-ATPase subunit interface; other site 458233002339 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 458233002340 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 458233002341 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 458233002342 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 458233002343 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 458233002344 catalytic loop [active] 458233002345 iron binding site [ion binding]; other site 458233002346 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 458233002347 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)...; Region: MopB_Formate-Dh-H; cd02753 458233002348 [4Fe-4S] binding site [ion binding]; other site 458233002349 molybdopterin cofactor binding site; other site 458233002350 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 458233002351 molybdopterin cofactor binding site; other site 458233002352 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 458233002353 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-1,6-; Region: IMPase_like; cd01637 458233002354 active site 458233002355 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 458233002356 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 458233002357 G1 box; other site 458233002358 putative GEF interaction site [polypeptide binding]; other site 458233002359 GTP/Mg2+ binding site [chemical binding]; other site 458233002360 Switch I region; other site 458233002361 G2 box; other site 458233002362 G3 box; other site 458233002363 Switch II region; other site 458233002364 G4 box; other site 458233002365 G5 box; other site 458233002366 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 458233002367 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...; Region: BipA_TypA_C; cd03710 458233002368 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458233002369 pyruvate carboxylase; Reviewed; Region: PRK12999 458233002370 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002371 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002372 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 458233002373 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 458233002374 active site 458233002375 catalytic residues [active] 458233002376 metal binding site [ion binding]; metal-binding site 458233002377 homodimer binding site [polypeptide binding]; other site 458233002378 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 458233002379 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 458233002380 carboxyltransferase (CT) interaction site; other site 458233002381 biotinylation site [posttranslational modification]; other site 458233002382 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 458233002383 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 458233002384 UbiA prenyltransferase family; Region: UbiA; cl00337 458233002385 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 458233002386 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 458233002387 Cytochrome c; Region: Cytochrom_C; cl11414 458233002388 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 458233002389 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 458233002390 D-pathway; other site 458233002391 Putative ubiquinol binding site [chemical binding]; other site 458233002392 Low-spin heme (heme b) binding site [chemical binding]; other site 458233002393 Putative water exit pathway; other site 458233002394 Binuclear center (heme o3/CuB) [ion binding]; other site 458233002395 K-pathway; other site 458233002396 Putative proton exit pathway; other site 458233002397 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 458233002398 Subunit I/III interface [polypeptide binding]; other site 458233002399 Subunit III/IV interface [polypeptide binding]; other site 458233002400 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 458233002401 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 458233002402 Protein of unknown function (DUF420); Region: DUF420; cl00989 458233002403 Domain of unknown function DUF20; Region: UPF0118; cl00465 458233002404 YugN-like family; Region: YugN; pfam08868 458233002405 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 458233002406 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 458233002407 Protein of unknown function (DUF964); Region: DUF964; cl01483 458233002408 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233002409 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 458233002410 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 458233002411 putative active site [active] 458233002412 catalytic site [active] 458233002413 putative metal binding site [ion binding]; other site 458233002414 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 458233002415 S-adenosylmethionine binding site [chemical binding]; other site 458233002416 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 458233002417 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 458233002418 active site 458233002419 (T/H)XGH motif; other site 458233002420 hypothetical protein; Provisional; Region: PRK13670 458233002421 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233002422 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 458233002423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 458233002424 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 458233002425 cell division protein MraZ; Reviewed; Region: PRK00326 458233002426 MraZ protein; Region: MraZ; pfam02381 458233002427 MraZ protein; Region: MraZ; pfam02381 458233002428 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 458233002429 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233002430 Septum formation initiator; Region: DivIC; cl11433 458233002431 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 458233002432 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233002433 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233002434 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 458233002435 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 458233002436 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 458233002437 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 458233002438 Mg++ binding site [ion binding]; other site 458233002439 putative catalytic motif [active] 458233002440 putative substrate binding site [chemical binding]; other site 458233002441 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 458233002442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002443 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233002444 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233002445 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 458233002446 Cell division protein FtsQ; Region: FtsQ; pfam03799 458233002447 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 458233002448 Cell division protein FtsA; Region: FtsA; cl11496 458233002449 Cell division protein FtsA; Region: FtsA; cl11496 458233002450 cell division protein FtsZ; Validated; Region: PRK09330 458233002451 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...; Region: FtsZ_type1; cd02201 458233002452 nucleotide binding site [chemical binding]; other site 458233002453 SulA interaction site; other site 458233002454 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 458233002455 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 458233002456 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 458233002457 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233002458 catalytic residue [active] 458233002459 Protein of unknown function (DUF552); Region: DUF552; cl00775 458233002460 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 458233002461 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 458233002462 RNA binding surface [nucleotide binding]; other site 458233002463 DivIVA protein; Region: DivIVA; pfam05103 458233002464 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 458233002465 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233002466 active site 458233002467 HIGH motif; other site 458233002468 nucleotide binding site [chemical binding]; other site 458233002469 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 458233002470 active site 458233002471 KMSKS motif; other site 458233002472 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 458233002473 tRNA binding surface [nucleotide binding]; other site 458233002474 anticodon binding site; other site 458233002475 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458233002476 potential protein location (hypothetical protein) that overlaps protein (Ile-tRNA synthetase) 458233002477 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 458233002478 lipoprotein signal peptidase; Provisional; Region: PRK14787 458233002479 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 458233002480 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 458233002481 RNA binding surface [nucleotide binding]; other site 458233002482 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 458233002483 active site 458233002484 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233002485 Sulfate transporter family; Region: Sulfate_transp; cl00967 458233002486 Permease family; Region: Xan_ur_permease; pfam00860 458233002487 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 458233002488 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458233002489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002490 dihydroorotase; Validated; Region: pyrC; PRK09357 458233002491 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...; Region: metallo-dependent_hydrolases; cl00281 458233002492 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 458233002493 active site 458233002494 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 458233002495 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 458233002496 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 458233002497 catalytic site [active] 458233002498 subunit interface [polypeptide binding]; other site 458233002499 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 458233002500 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002501 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002502 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 458233002503 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233002504 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002505 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 458233002506 IMP binding site; other site 458233002507 dimer interface [polypeptide binding]; other site 458233002508 interdomain contacts; other site 458233002509 partial ornithine binding site; other site 458233002510 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 458233002511 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 458233002512 FAD binding pocket [chemical binding]; other site 458233002513 FAD binding motif [chemical binding]; other site 458233002514 phosphate binding motif [ion binding]; other site 458233002515 beta-alpha-beta structure motif; other site 458233002516 NAD binding pocket [chemical binding]; other site 458233002517 Iron coordination center [ion binding]; other site 458233002518 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 458233002519 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 458233002520 heterodimer interface [polypeptide binding]; other site 458233002521 active site 458233002522 FMN binding site [chemical binding]; other site 458233002523 homodimer interface [polypeptide binding]; other site 458233002524 substrate binding site [chemical binding]; other site 458233002525 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 458233002526 active site 458233002527 dimer interface [polypeptide binding]; other site 458233002528 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233002529 potential frameshift: common BLAST hit: gi|57865456|ref|YP_189611.1| phosphoglucomutase/phosphomannomutase family protein 458233002530 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 deoxyribose-1-...; Region: PGM2; cd05799 458233002531 active site 458233002532 substrate binding site [chemical binding]; other site 458233002533 metal binding site [ion binding]; metal-binding site 458233002534 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)...; Region: phosphohexomutase; cl03757 458233002535 pullulanase, type I; Region: pulA_typeI; TIGR02104 458233002536 Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-...; Region: Pullulanase_N_term; cd02860 458233002537 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233002538 glycogen branching enzyme; Provisional; Region: PRK05402 458233002539 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 458233002540 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233002541 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 458233002542 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 458233002543 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 458233002544 ligand binding site [chemical binding]; other site 458233002545 oligomer interface [polypeptide binding]; other site 458233002546 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 rate-...; Region: LbH_G1P_AT_C; cd04651 458233002547 dimer interface [polypeptide binding]; other site 458233002548 N-terminal domain interface [polypeptide binding]; other site 458233002549 sulfate 1 binding site; other site 458233002550 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 458233002551 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 458233002552 ligand binding site [chemical binding]; other site 458233002553 oligomer interface [polypeptide binding]; other site 458233002554 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 rate-...; Region: LbH_G1P_AT_C; cd04651 458233002555 dimer interface [polypeptide binding]; other site 458233002556 N-terminal domain interface [polypeptide binding]; other site 458233002557 sulfate 1 binding site; other site 458233002558 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 458233002559 glycogen synthase; Provisional; Region: glgA; PRK00654 458233002560 ADP-binding pocket [chemical binding]; other site 458233002561 homodimer interface [polypeptide binding]; other site 458233002562 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 458233002563 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 458233002564 active site pocket [active] 458233002565 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 458233002566 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233002567 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458233002568 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 458233002569 Catalytic site [active] 458233002570 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 458233002571 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 458233002572 dimer interface [polypeptide binding]; other site 458233002573 Alkaline phosphatase homologues; Region: alkPPc; smart00098 458233002574 active site 458233002575 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 458233002576 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...; Region: AAA; cd00009 458233002577 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458233002578 Walker A motif; other site 458233002579 ATP binding site [chemical binding]; other site 458233002580 Walker B motif; other site 458233002581 arginine finger; other site 458233002582 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...; Region: AAA; cd00009 458233002583 Walker A motif; other site 458233002584 ATP binding site [chemical binding]; other site 458233002585 Walker B motif; other site 458233002586 arginine finger; other site 458233002587 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458233002588 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 458233002589 Domain of unknown function (DUF814); Region: DUF814; pfam05670 458233002590 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...; Region: GMPK; cd00071 458233002591 catalytic site [active] 458233002592 G-X2-G-X-G-K; other site 458233002593 Flavoprotein; Region: Flavoprotein; cl08021 458233002594 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 458233002595 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 458233002596 primosome assembly protein PriA; Validated; Region: PRK05580 458233002597 primosome assembly protein PriA; Validated; Region: PRK05580 458233002598 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 458233002599 ATP binding site [chemical binding]; other site 458233002600 putative Mg++ binding site [ion binding]; other site 458233002601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233002602 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(...; Region: Pep_deformylase; cd00487 458233002603 active site 458233002604 catalytic residues [active] 458233002605 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 458233002606 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 458233002607 putative active site [active] 458233002608 substrate binding site [chemical binding]; other site 458233002609 putative cosubstrate binding site; other site 458233002610 catalytic site [active] 458233002611 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 458233002612 substrate binding site [chemical binding]; other site 458233002613 16S rRNA methyltransferase B; Provisional; Region: PRK14902 458233002614 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 rRNA-...; Region: NusB_Sun; cl00223 458233002615 putative RNA binding site [nucleotide binding]; other site 458233002616 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233002617 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 458233002618 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 458233002619 FeS/SAM binding site; other site 458233002620 Protein phosphatase 2C; Region: PP2C; pfam00481 458233002621 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 458233002622 Active site [active] 458233002623 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458233002624 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 458233002625 active site 458233002626 ATP binding site [chemical binding]; other site 458233002627 substrate binding site [chemical binding]; other site 458233002628 activation loop (A-loop); other site 458233002629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 458233002630 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 458233002631 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 458233002632 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 458233002633 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458233002634 Active site serine [active] 458233002635 Cytochrome P450; Region: p450; cl12078 458233002636 GTPase RsgA; Reviewed; Region: PRK00098 458233002637 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 458233002638 GTPase/OB domain interface [polypeptide binding]; other site 458233002639 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458233002640 GTP/Mg2+ binding site [chemical binding]; other site 458233002641 G4 box; other site 458233002642 G5 box; other site 458233002643 G1 box; other site 458233002644 Switch I region; other site 458233002645 G2 box; other site 458233002646 G3 box; other site 458233002647 Switch II region; other site 458233002648 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...; Region: RPE; cd00429 458233002649 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 458233002650 substrate binding site [chemical binding]; other site 458233002651 hexamer interface [polypeptide binding]; other site 458233002652 metal binding site [ion binding]; metal-binding site 458233002653 Thiamine pyrophosphokinase; Region: TPK; cd07995 458233002654 active site 458233002655 dimerization interface [polypeptide binding]; other site 458233002656 thiamine binding site [chemical binding]; other site 458233002657 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 458233002658 DAK2 domain; Region: Dak2; cl03685 458233002659 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 458233002660 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458233002661 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 458233002662 putative L-serine binding site [chemical binding]; other site 458233002663 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 458233002664 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 458233002665 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 458233002666 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 four-...; Region: RecG_wedge_OBF; cd04488 458233002667 generic binding surface II; other site 458233002668 ssDNA binding site; other site 458233002669 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 458233002670 ATP binding site [chemical binding]; other site 458233002671 putative Mg++ binding site [ion binding]; other site 458233002672 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 458233002673 nucleotide binding region [chemical binding]; other site 458233002674 ATP-binding site [chemical binding]; other site 458233002675 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 458233002676 active site 458233002677 catalytic site [active] 458233002678 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 458233002679 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 458233002680 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 458233002681 Acyl transferase domain; Region: Acyl_transf_1; cl08282 458233002682 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458233002683 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458233002684 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 458233002685 NAD(P) binding site [chemical binding]; other site 458233002686 homotetramer interface [polypeptide binding]; other site 458233002687 homodimer interface [polypeptide binding]; other site 458233002688 active site 458233002689 ribonuclease III; Reviewed; Region: rnc; PRK00102 458233002690 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 post-...; Region: RIBOc; cd00593 458233002691 dimerization interface [polypeptide binding]; other site 458233002692 active site 458233002693 metal binding site [ion binding]; metal-binding site 458233002694 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...; Region: DSRM; cd00048 458233002695 dsRNA binding site [nucleotide binding]; other site 458233002696 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458233002697 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 458233002698 Walker A/P-loop; other site 458233002699 ATP binding site [chemical binding]; other site 458233002700 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 458233002701 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (...; Region: ABC_SMC_barmotin; cd03278 458233002702 ABC transporter signature motif; other site 458233002703 Walker B; other site 458233002704 D-loop; other site 458233002705 H-loop/switch region; other site 458233002706 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 458233002707 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 458233002708 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 458233002709 P loop; other site 458233002710 GTP binding site [chemical binding]; other site 458233002711 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233002712 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 458233002713 signal recognition particle protein; Provisional; Region: PRK10867 458233002714 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 458233002715 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 458233002716 P loop; other site 458233002717 GTP binding site [chemical binding]; other site 458233002718 Signal peptide binding domain; Region: SRP_SPB; pfam02978 458233002719 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 458233002720 RimM N-terminal domain; Region: RimM; pfam01782 458233002721 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 458233002722 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 458233002723 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 458233002724 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 458233002725 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 458233002726 GtrA-like protein; Region: GtrA; cl00971 458233002727 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 458233002728 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 458233002729 Ligand binding site [chemical binding]; other site 458233002730 Putative Catalytic site [active] 458233002731 DXD motif; other site 458233002732 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 458233002733 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases...; Region: YlqF; cd01856 458233002734 GTP/Mg2+ binding site [chemical binding]; other site 458233002735 G4 box; other site 458233002736 G5 box; other site 458233002737 G1 box; other site 458233002738 Switch I region; other site 458233002739 G2 box; other site 458233002740 G3 box; other site 458233002741 Switch II region; other site 458233002742 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 458233002743 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233002744 active site 458233002745 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 458233002746 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233002747 CoA-ligase; Region: Ligase_CoA; pfam00549 458233002748 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 458233002749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002750 CoA-ligase; Region: Ligase_CoA; pfam00549 458233002751 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 458233002752 DNA topoisomerase I; Validated; Region: PRK05582 458233002753 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 458233002754 active site 458233002755 interdomain interaction site; other site 458233002756 putative metal-binding site [ion binding]; other site 458233002757 nucleotide binding site [chemical binding]; other site 458233002758 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...; Region: TOP1Ac; cd00186 458233002759 domain I; other site 458233002760 DNA binding groove [nucleotide binding] 458233002761 phosphate binding site [ion binding]; other site 458233002762 domain II; other site 458233002763 domain III; other site 458233002764 nucleotide binding site [chemical binding]; other site 458233002765 catalytic site [active] 458233002766 domain IV; other site 458233002767 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 458233002768 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 458233002769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002770 Glucose inhibited division protein A; Region: GIDA; pfam01134 458233002771 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 458233002772 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 458233002773 DNA binding site [nucleotide binding] 458233002774 Int/Topo IB signature motif; other site 458233002775 active site 458233002776 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 458233002777 active site 458233002778 HslU subunit interaction site [polypeptide binding]; other site 458233002779 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 458233002780 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...; Region: AAA; cd00009 458233002781 Walker A motif; other site 458233002782 ATP binding site [chemical binding]; other site 458233002783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233002784 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458233002785 transcriptional repressor CodY; Validated; Region: PRK04158 458233002786 CodY GAF-like domain; Region: CodY; pfam06018 458233002787 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 458233002788 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 458233002789 rRNA interaction site [nucleotide binding]; other site 458233002790 S8 interaction site; other site 458233002791 putative laminin-1 binding site; other site 458233002792 elongation factor Ts; Provisional; Region: tsf; PRK09377 458233002793 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 458233002794 Elongation factor TS; Region: EF_TS; pfam00889 458233002795 Elongation factor TS; Region: EF_TS; pfam00889 458233002796 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 458233002797 putative nucleotide binding site [chemical binding]; other site 458233002798 uridine monophosphate binding site [chemical binding]; other site 458233002799 homohexameric interface [polypeptide binding]; other site 458233002800 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 458233002801 hinge region; other site 458233002802 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 458233002803 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 458233002804 catalytic residue [active] 458233002805 putative FPP diphosphate binding site; other site 458233002806 putative FPP binding hydrophobic cleft; other site 458233002807 dimer interface [polypeptide binding]; other site 458233002808 putative IPP diphosphate binding site; other site 458233002809 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 458233002810 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 458233002811 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 458233002812 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 458233002813 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 458233002814 RIP metalloprotease RseP; Region: TIGR00054 458233002815 active site 458233002816 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 458233002817 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...; Region: PDZ_metalloprotease; cd00989 458233002818 protein binding site [polypeptide binding]; other site 458233002819 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 458233002820 putative substrate binding region [chemical binding]; other site 458233002821 prolyl-tRNA synthetase; Provisional; Region: PRK09194 458233002822 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 458233002823 dimer interface [polypeptide binding]; other site 458233002824 motif 1; other site 458233002825 active site 458233002826 motif 2; other site 458233002827 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 single-...; Region: ProRS-INS; cd04334 458233002828 putative deacylase active site [active] 458233002829 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 458233002830 active site 458233002831 motif 3; other site 458233002832 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-...; Region: ProRS_anticodon_short; cd00861 458233002833 anticodon binding site; other site 458233002834 DNA polymerase III PolC; Validated; Region: polC; PRK00448 458233002835 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 458233002836 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 458233002837 generic binding surface II; other site 458233002838 generic binding surface I; other site 458233002839 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 458233002840 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458233002841 active site 458233002842 substrate binding site [chemical binding]; other site 458233002843 catalytic site [active] 458233002844 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 458233002845 ribosome maturation protein RimP; Reviewed; Region: PRK00092 458233002846 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 458233002847 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 458233002848 Sm1 motif; other site 458233002849 predicted subunit interaction site [polypeptide binding]; other site 458233002850 RNA binding pocket [nucleotide binding]; other site 458233002851 Sm2 motif; other site 458233002852 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 458233002853 NusA N-terminal domain; Region: NusA_N; pfam08529 458233002854 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...; Region: S1_NusA; cd04455 458233002855 RNA binding site [nucleotide binding]; other site 458233002856 homodimer interface [polypeptide binding]; other site 458233002857 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 458233002858 G-X-X-G motif; other site 458233002859 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 458233002860 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458233002861 translation initiation factor IF-2; Region: IF-2; TIGR00487 458233002862 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458233002863 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 458233002864 G1 box; other site 458233002865 putative GEF interaction site [polypeptide binding]; other site 458233002866 GTP/Mg2+ binding site [chemical binding]; other site 458233002867 Switch I region; other site 458233002868 G2 box; other site 458233002869 G3 box; other site 458233002870 Switch II region; other site 458233002871 G4 box; other site 458233002872 G5 box; other site 458233002873 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...; Region: IF2_mtIF2_II; cd03702 458233002874 Translation-initiation factor 2; Region: IF-2; pfam11987 458233002875 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...; Region: mtIF2_IVc; cd03692 458233002876 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 458233002877 Phage integrase family; Region: Phage_integrase; pfam00589 458233002878 DNA binding site [nucleotide binding] 458233002879 Int/Topo IB signature motif; other site 458233002880 active site 458233002881 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233002882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233002883 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 458233002884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233002885 Coenzyme A binding pocket [chemical binding]; other site 458233002886 threonine dehydratase; Validated; Region: PRK08639 458233002887 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 458233002888 tetramer interface [polypeptide binding]; other site 458233002889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233002890 catalytic residue [active] 458233002891 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-...; Region: CBS_pair; cl09141 458233002892 ketol-acid reductoisomerase; Provisional; Region: PRK05479 458233002893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233002894 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458233002895 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 458233002896 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458233002897 PYR/PP interface [polypeptide binding]; other site 458233002898 dimer interface [polypeptide binding]; other site 458233002899 TPP binding site [chemical binding]; other site 458233002900 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233002901 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 458233002902 TPP-binding site [chemical binding]; other site 458233002903 dimer interface [polypeptide binding]; other site 458233002904 Dehydratase family; Region: ILVD_EDD; cl00340 458233002905 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 458233002906 Ribosome-binding factor A; Region: RBFA; cl00542 458233002907 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 458233002908 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 458233002909 RNA binding site [nucleotide binding]; other site 458233002910 active site 458233002911 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 458233002912 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 458233002913 active site 458233002914 Riboflavin kinase; Region: Flavokinase; cl03312 458233002915 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...; Region: Ribosomal_S15p_S13e; cd00353 458233002916 16S/18S rRNA binding site [nucleotide binding]; other site 458233002917 S13e-L30e interaction site [polypeptide binding]; other site 458233002918 25S rRNA binding site [nucleotide binding]; other site 458233002919 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 458233002920 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 458233002921 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 458233002922 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 458233002923 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 458233002924 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 458233002925 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 458233002926 putative nucleic acid binding region [nucleotide binding]; other site 458233002927 G-X-X-G motif; other site 458233002928 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 458233002929 RNA binding site [nucleotide binding]; other site 458233002930 domain interface; other site 458233002931 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233002932 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458233002933 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233002934 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 458233002935 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233002936 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233002937 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 458233002938 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233002939 DNA-binding site [nucleotide binding]; DNA binding site 458233002940 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 458233002941 UTRA domain; Region: UTRA; cl01230 458233002942 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233002943 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233002944 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458233002945 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458233002946 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458233002947 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 458233002948 classical (c) SDRs; Region: SDR_c; cd05233 458233002949 NAD(P) binding site [chemical binding]; other site 458233002950 active site 458233002951 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-...; Region: CBS_pair; cl09141 458233002952 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 458233002953 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 458233002954 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 458233002955 recombinase A; Provisional; Region: recA; PRK09354 458233002956 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 458233002957 hexamer interface [polypeptide binding]; other site 458233002958 Walker A motif; other site 458233002959 ATP binding site [chemical binding]; other site 458233002960 Walker B motif; other site 458233002961 phosphodiesterase; Provisional; Region: PRK12704 458233002962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233002963 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233002964 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233002965 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 458233002966 putative active site [active] 458233002967 metal binding site [ion binding]; metal-binding site 458233002968 homodimer binding site [polypeptide binding]; other site 458233002969 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 458233002970 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 458233002971 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 458233002972 dimer interface [polypeptide binding]; other site 458233002973 PYR/PP interface [polypeptide binding]; other site 458233002974 TPP binding site [chemical binding]; other site 458233002975 substrate binding site [chemical binding]; other site 458233002976 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 458233002977 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 458233002978 TPP-binding site [chemical binding]; other site 458233002979 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 458233002980 NMT1/THI5 like; Region: NMT1; pfam09084 458233002981 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...; Region: TM_PBP2; cl00427 458233002982 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 458233002983 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars...; Region: ABC_NrtD_SsuB_transporters; cd03293 458233002984 Walker A/P-loop; other site 458233002985 ATP binding site [chemical binding]; other site 458233002986 Q-loop/lid; other site 458233002987 ABC transporter signature motif; other site 458233002988 Walker B; other site 458233002989 D-loop; other site 458233002990 H-loop/switch region; other site 458233002991 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 458233002992 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233002993 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233002994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233002995 Walker A/P-loop; other site 458233002996 ATP binding site [chemical binding]; other site 458233002997 Q-loop/lid; other site 458233002998 ABC transporter signature motif; other site 458233002999 Walker B; other site 458233003000 D-loop; other site 458233003001 H-loop/switch region; other site 458233003002 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233003003 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233003004 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233003005 Walker A/P-loop; other site 458233003006 ATP binding site [chemical binding]; other site 458233003007 Q-loop/lid; other site 458233003008 ABC transporter signature motif; other site 458233003009 Walker B; other site 458233003010 D-loop; other site 458233003011 H-loop/switch region; other site 458233003012 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 458233003013 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458233003014 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 458233003015 FeS/SAM binding site; other site 458233003016 TRAM domain; Region: TRAM; cl01282 458233003017 Protein of unknown function (DUF964); Region: DUF964; cl01483 458233003018 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 458233003019 MutS domain I; Region: MutS_I; pfam01624 458233003020 MutS domain II; Region: MutS_II; pfam05188 458233003021 MutS family domain IV; Region: MutS_IV; pfam05190 458233003022 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 458233003023 Walker A/P-loop; other site 458233003024 ATP binding site [chemical binding]; other site 458233003025 Q-loop/lid; other site 458233003026 ABC transporter signature motif; other site 458233003027 Walker B; other site 458233003028 D-loop; other site 458233003029 H-loop/switch region; other site 458233003030 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 458233003031 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 458233003032 ATP binding site [chemical binding]; other site 458233003033 Mg2+ binding site [ion binding]; other site 458233003034 G-X-G motif; other site 458233003035 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 458233003036 ATP binding site [chemical binding]; other site 458233003037 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 458233003038 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 458233003039 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-...; Region: MIP; cd00333 458233003040 amphipathic channel; other site 458233003041 Asn-Pro-Ala signature motifs; other site 458233003042 glycerol kinase; Provisional; Region: glpK; PRK00047 458233003043 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 458233003044 N- and C-terminal domain interface [polypeptide binding]; other site 458233003045 active site 458233003046 MgATP binding site [chemical binding]; other site 458233003047 catalytic site [active] 458233003048 metal binding site [ion binding]; metal-binding site 458233003049 glycerol binding site [chemical binding]; other site 458233003050 homotetramer interface [polypeptide binding]; other site 458233003051 homodimer interface [polypeptide binding]; other site 458233003052 FBP binding site [chemical binding]; other site 458233003053 protein IIAGlc interface [polypeptide binding]; other site 458233003054 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458233003055 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458233003056 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233003057 IPP transferase; Region: IPPT; cl00403 458233003058 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...; Region: GSH_Peroxidase; cd00340 458233003059 catalytic residues [active] 458233003060 dimer interface [polypeptide binding]; other site 458233003061 GTPases [General function prediction only]; Region: HflX; COG2262 458233003062 Restriction endonuclease; Region: Mrr_cat; cl00747 458233003063 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 458233003064 G1 box; other site 458233003065 GTP/Mg2+ binding site [chemical binding]; other site 458233003066 Switch I region; other site 458233003067 G2 box; other site 458233003068 G3 box; other site 458233003069 Switch II region; other site 458233003070 G4 box; other site 458233003071 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 458233003072 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 458233003073 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233003074 DNA binding residues [nucleotide binding] 458233003075 glutamine synthetase, type I; Region: GlnA; TIGR00653 458233003076 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 458233003077 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458233003078 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 458233003079 Phage integrase family; Region: Phage_integrase; pfam00589 458233003080 Int/Topo IB signature motif; other site 458233003081 Abi-like protein; Region: Abi_2; cl01988 458233003082 SAP domain; Region: SAP; cl02640 458233003083 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233003084 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233003085 AntA/AntB antirepressor; Region: AntA; cl01430 458233003086 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 458233003087 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 458233003088 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 458233003089 dimer interface [polypeptide binding]; other site 458233003090 ssDNA binding site [nucleotide binding]; other site 458233003091 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233003092 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 458233003093 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233003094 YopX protein; Region: YopX; cl09859 458233003095 dUTPase; Region: dUTPase_2; pfam08761 458233003096 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 458233003097 Endodeoxyribonuclease RusA; Region: RusA; cl01885 458233003098 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 458233003099 positive control sigma-like factor; Validated; Region: PRK06930 458233003100 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233003101 Terminase small subunit; Region: Terminase_2; cl01513 458233003102 Phage terminase large subunit; Region: Terminase_3; cl12054 458233003103 Terminase-like family; Region: Terminase_6; pfam03237 458233003104 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 458233003105 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 458233003106 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 458233003107 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 458233003108 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 458233003109 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 458233003110 Phage major tail protein 2; Region: Phage_tail_2; cl11463 458233003111 Phage protein; Region: DUF3647; cl10335 458233003112 Phage-related protein [Function unknown]; Region: COG5412 458233003113 glycoprotein BALF4; Provisional; Region: PHA03231 458233003114 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233003115 Holin family; Region: Phage_holin_4; cl01989 458233003116 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 458233003117 amidase catalytic site [active] 458233003118 Zn binding residues [ion binding]; other site 458233003119 substrate binding site [chemical binding]; other site 458233003120 Bacterial SH3 domain; Region: SH3_3; cl02551 458233003121 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 458233003122 Phage integrase family; Region: Phage_integrase; pfam00589 458233003123 Int/Topo IB signature motif; other site 458233003124 Domain of unknown function (DUF955); Region: DUF955; cl01076 458233003125 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 458233003126 Uncharacterized conserved protein [Function unknown]; Region: COG4748 458233003127 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 458233003128 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233003129 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 458233003130 non-specific DNA binding site [nucleotide binding]; other site 458233003131 salt bridge; other site 458233003132 sequence-specific DNA binding site [nucleotide binding]; other site 458233003133 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 458233003134 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 458233003135 Phage-related protein, predicted endonuclease [DNA replication, recombination, and repair]; Region: COG5377 458233003136 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 458233003137 RecT family; Region: RecT; cl04285 458233003138 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 458233003139 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233003140 hypothetical protein; Validated; Region: PRK08116 458233003141 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233003142 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 458233003143 dimer interface [polypeptide binding]; other site 458233003144 ssDNA binding site [nucleotide binding]; other site 458233003145 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233003146 putative NHN endonuclease; Region: PHA00280 458233003147 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458233003148 Uncharacterized conserved protein [Function unknown]; Region: COG5484 458233003149 Phage terminase large subunit; Region: Terminase_3; cl12054 458233003150 Terminase-like family; Region: Terminase_6; pfam03237 458233003151 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 458233003152 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 458233003153 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 458233003154 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 458233003155 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional; Region: PLN03229 458233003156 Phage-related protein [Function unknown]; Region: COG5412 458233003157 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233003158 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458233003159 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458233003160 catalytic residue [active] 458233003161 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 458233003162 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233003163 putative peptidoglycan binding site; other site 458233003164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 458233003165 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233003166 putative peptidoglycan binding site; other site 458233003167 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233003168 Holin family; Region: Phage_holin_4; cl01989 458233003169 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 458233003170 active site 458233003171 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 458233003172 amidase catalytic site [active] 458233003173 Zn binding residues [ion binding]; other site 458233003174 substrate binding site [chemical binding]; other site 458233003175 Uncharacterized conserved protein [Function unknown]; Region: COG4938 458233003176 YolD-like protein; Region: YolD; pfam08863 458233003177 aspartate kinase; Reviewed; Region: PRK09034 458233003178 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 458233003179 nucleotide binding site [chemical binding]; other site 458233003180 substrate binding site [chemical binding]; other site 458233003181 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 458233003182 allosteric regulatory residue; other site 458233003183 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 458233003184 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 458233003185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003186 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458233003187 threonine synthase; Reviewed; Region: PRK06721 458233003188 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 458233003189 homodimer interface [polypeptide binding]; other site 458233003190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233003191 catalytic residue [active] 458233003192 homoserine kinase; Provisional; Region: PRK01212 458233003193 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 458233003194 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233003195 active site 458233003196 motif I; other site 458233003197 motif II; other site 458233003198 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; cl11391 458233003199 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233003200 Amino acid permease; Region: AA_permease; pfam00324 458233003201 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 458233003202 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233003203 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 458233003204 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...; Region: TroA-like; cl00262 458233003205 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 458233003206 intersubunit interface [polypeptide binding]; other site 458233003207 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 458233003208 active site 458233003209 metal binding site [ion binding]; metal-binding site 458233003210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233003211 LexA repressor; Validated; Region: PRK00215 458233003212 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 (...; Region: S24_LexA-like; cd06529 458233003213 Catalytic site [active] 458233003214 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 458233003215 transketolase; Reviewed; Region: PRK05899 458233003216 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 458233003217 TPP-binding site [chemical binding]; other site 458233003218 dimer interface [polypeptide binding]; other site 458233003219 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 458233003220 PYR/PP interface [polypeptide binding]; other site 458233003221 dimer interface [polypeptide binding]; other site 458233003222 TPP binding site [chemical binding]; other site 458233003223 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233003224 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 458233003225 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 458233003226 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 458233003227 Protein of unknown function (DUF2621); Region: DUF2621; pfam11084 458233003228 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458233003229 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458233003230 active site 458233003231 metal binding site [ion binding]; metal-binding site 458233003232 DNA binding site [nucleotide binding] 458233003233 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 458233003234 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 458233003235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233003236 Walker A/P-loop; other site 458233003237 ATP binding site [chemical binding]; other site 458233003238 Q-loop/lid; other site 458233003239 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 458233003240 ABC transporter signature motif; other site 458233003241 Walker B; other site 458233003242 D-loop; other site 458233003243 H-loop/switch region; other site 458233003244 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 458233003245 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 458233003246 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 458233003247 BCCT family transporter; Region: BCCT; cl00569 458233003248 aconitate hydratase; Validated; Region: PRK09277 458233003249 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 458233003250 substrate binding site [chemical binding]; other site 458233003251 ligand binding site [chemical binding]; other site 458233003252 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 458233003253 substrate binding site [chemical binding]; other site 458233003254 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...; Region: 4HBT; cd00586 458233003255 active site 458233003256 Domain of unknown function (DUF205); Region: DUF205; cl00410 458233003257 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 458233003258 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 458233003259 ATP binding site [chemical binding]; other site 458233003260 Mg2+ binding site [ion binding]; other site 458233003261 G-X-G motif; other site 458233003262 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 458233003263 anchoring element; other site 458233003264 dimer interface [polypeptide binding]; other site 458233003265 ATP binding site [chemical binding]; other site 458233003266 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 458233003267 active site 458233003268 putative metal-binding site [ion binding]; other site 458233003269 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458233003270 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 458233003271 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 458233003272 CAP-like domain; other site 458233003273 Active site [active] 458233003274 primary dimer interface [polypeptide binding]; other site 458233003275 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458233003276 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 458233003277 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 458233003278 transcriptional antiterminator BglG; Provisional; Region: PRK09772 458233003279 PRD domain; Region: PRD; pfam00874 458233003280 PRD domain; Region: PRD; pfam00874 458233003281 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 458233003282 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233003283 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...; Region: PTS_IIB_glc; cd00212 458233003284 active site turn [active] 458233003285 phosphorylation site [posttranslational modification] 458233003286 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 458233003287 HPr interaction site; other site 458233003288 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233003289 active site 458233003290 phosphorylation site [posttranslational modification] 458233003291 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458233003292 Domain of unknown function DUF20; Region: UPF0118; cl00465 458233003293 Predicted integral membrane protein [Function unknown]; Region: COG0392 458233003294 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 458233003295 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 458233003296 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 458233003297 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233003298 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233003299 Cation efflux family; Region: Cation_efflux; cl00316 458233003300 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 458233003301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003302 Coenzyme A binding pocket [chemical binding]; other site 458233003303 Phosphotransferase enzyme family; Region: APH; pfam01636 458233003304 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 458233003305 active site 458233003306 substrate binding site [chemical binding]; other site 458233003307 ATP binding site [chemical binding]; other site 458233003308 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...; Region: Nudix_Hydrolase; cl00447 458233003309 nudix motif; other site 458233003310 ParB-like nuclease domain; Region: ParBc; cl02129 458233003311 Predicted transcriptional regulators [Transcription]; Region: COG1725 458233003312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233003313 DNA-binding site [nucleotide binding]; DNA binding site 458233003314 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 458233003315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003316 Coenzyme A binding pocket [chemical binding]; other site 458233003317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233003318 Coenzyme A binding pocket [chemical binding]; other site 458233003319 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233003320 DNA polymerase IV; Reviewed; Region: PRK03103 458233003321 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458233003322 active site 458233003323 DNA binding site [nucleotide binding] 458233003324 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 458233003325 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233003326 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233003327 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 458233003328 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 458233003329 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 458233003330 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 458233003331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233003332 putative substrate translocation pore; other site 458233003333 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233003334 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 458233003335 putative oligomer interface [polypeptide binding]; other site 458233003336 putative active site [active] 458233003337 metal binding site [ion binding]; metal-binding site 458233003338 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458233003339 potential catalytic triad [active] 458233003340 conserved cys residue [active] 458233003341 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458233003342 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 458233003343 FemAB family; Region: FemAB; cl11444 458233003344 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 458233003345 FemAB family; Region: FemAB; cl11444 458233003346 Gaa1-like, GPI transamidase component; Region: Gaa1; pfam04114 458233003347 oligoendopeptidase F; Region: pepF; TIGR00181 458233003348 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 458233003349 active site 458233003350 Zn binding site [ion binding]; other site 458233003351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003352 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 458233003353 NAD(P) binding site [chemical binding]; other site 458233003354 active site 458233003355 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 458233003356 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458233003357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233003358 Walker A/P-loop; other site 458233003359 ATP binding site [chemical binding]; other site 458233003360 Q-loop/lid; other site 458233003361 ABC transporter signature motif; other site 458233003362 Walker B; other site 458233003363 D-loop; other site 458233003364 H-loop/switch region; other site 458233003365 ABC transporter; Region: ABC_tran_2; pfam12848 458233003366 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233003367 aspartate kinase; Reviewed; Region: PRK06635 458233003368 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 458233003369 putative nucleotide binding site [chemical binding]; other site 458233003370 putative catalytic residues [active] 458233003371 putative Mg ion binding site [ion binding]; other site 458233003372 putative aspartate binding site [chemical binding]; other site 458233003373 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 458233003374 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 458233003375 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 458233003376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003377 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 458233003378 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 458233003379 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 458233003380 dimer interface [polypeptide binding]; other site 458233003381 active site 458233003382 catalytic residue [active] 458233003383 dihydrodipicolinate reductase; Provisional; Region: PRK00048 458233003384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003385 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 458233003386 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 458233003387 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 458233003388 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 458233003389 trimer interface [polypeptide binding]; other site 458233003390 active site 458233003391 substrate binding site [chemical binding]; other site 458233003392 CoA binding site [chemical binding]; other site 458233003393 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233003394 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233003395 metal binding site [ion binding]; metal-binding site 458233003396 dimer interface [polypeptide binding]; other site 458233003397 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 458233003398 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 458233003399 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233003400 catalytic residue [active] 458233003401 diaminopimelate decarboxylase; Region: lysA; TIGR01048 458233003402 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 458233003403 active site 458233003404 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233003405 substrate binding site [chemical binding]; other site 458233003406 catalytic residues [active] 458233003407 dimer interface [polypeptide binding]; other site 458233003408 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 458233003409 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 458233003410 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 458233003411 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 458233003412 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 458233003413 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 458233003414 metal ion-dependent adhesion site (MIDAS); other site 458233003415 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...; Region: AAA; cd00009 458233003416 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 458233003417 Walker A motif; other site 458233003418 ATP binding site [chemical binding]; other site 458233003419 Walker B motif; other site 458233003420 arginine finger; other site 458233003421 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 458233003422 Zn binding site [ion binding]; other site 458233003423 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 458233003424 active site 458233003425 metal binding site [ion binding]; metal-binding site 458233003426 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 458233003427 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 458233003428 E3 interaction surface; other site 458233003429 lipoyl attachment site [posttranslational modification]; other site 458233003430 e3 binding domain; Region: E3_binding; pfam02817 458233003431 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 458233003432 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 458233003433 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 458233003434 TPP-binding site [chemical binding]; other site 458233003435 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 458233003436 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 connected by an extended linker. The...; Region: HAMP; cl01054 458233003437 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 trans-...; Region: HisKA; cd00082 458233003438 dimer interface [polypeptide binding]; other site 458233003439 phosphorylation site [posttranslational modification] 458233003440 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 458233003441 ATP binding site [chemical binding]; other site 458233003442 Mg2+ binding site [ion binding]; other site 458233003443 G-X-G motif; other site 458233003444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233003445 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 458233003446 active site 458233003447 phosphorylation site [posttranslational modification] 458233003448 intermolecular recognition site; other site 458233003449 dimerization interface [polypeptide binding]; other site 458233003450 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...; Region: trans_reg_C; cd00383 458233003451 DNA binding site [nucleotide binding] 458233003452 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458233003453 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 458233003454 active site 458233003455 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 458233003456 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...; Region: GT1_MurG; cd03785 458233003457 active site 458233003458 homodimer interface [polypeptide binding]; other site 458233003459 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458233003460 C-terminal peptidase (prc); Region: prc; TIGR00225 458233003461 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 458233003462 protein binding site [polypeptide binding]; other site 458233003463 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458233003464 Catalytic dyad [active] 458233003465 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458233003466 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 458233003467 HPr interaction site; other site 458233003468 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458233003469 active site 458233003470 phosphorylation site [posttranslational modification] 458233003471 SelR domain; Region: SelR; cl00369 458233003472 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 458233003473 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 458233003474 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 458233003475 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458233003476 putative acyl-acceptor binding pocket; other site 458233003477 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 5,10-...; Region: DHFR; cd00209 458233003478 folate binding site [chemical binding]; other site 458233003479 NADP+ binding site [chemical binding]; other site 458233003480 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 458233003481 dimerization interface [polypeptide binding]; other site 458233003482 active site 458233003483 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 458233003484 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 458233003485 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 458233003486 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 458233003487 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 458233003488 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233003489 active site 458233003490 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 458233003491 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233003492 active site 458233003493 motif I; other site 458233003494 motif II; other site 458233003495 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; cl11391 458233003496 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 458233003497 5'-3' exonuclease; Region: 53EXOc; smart00475 458233003498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458233003499 active site 458233003500 metal binding site 1 [ion binding]; metal-binding site 458233003501 putative 5' ssDNA interaction site; other site 458233003502 metal binding site 3; metal-binding site 458233003503 metal binding site 2 [ion binding]; metal-binding site 458233003504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458233003505 putative DNA binding site [nucleotide binding]; other site 458233003506 putative metal binding site [ion binding]; other site 458233003507 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 458233003508 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 458233003509 active site residue [active] 458233003510 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 458233003511 active site residue [active] 458233003512 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 458233003513 G1 box; other site 458233003514 GTP/Mg2+ binding site [chemical binding]; other site 458233003515 Switch I region; other site 458233003516 G2 box; other site 458233003517 Switch II region; other site 458233003518 G3 box; other site 458233003519 G4 box; other site 458233003520 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233003521 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 458233003522 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 458233003523 Putative D-pathway homolog; other site 458233003524 Low-spin heme binding site [chemical binding]; other site 458233003525 Subunit I/II interface [polypeptide binding]; other site 458233003526 Putative Q-pathway; other site 458233003527 Putative alternate electron transfer pathway; other site 458233003528 Putative water exit pathway; other site 458233003529 Binuclear center (active site) [active] 458233003530 Putative K-pathway homolog; other site 458233003531 Putative proton exit pathway; other site 458233003532 Subunit I/IIa interface [polypeptide binding]; other site 458233003533 Electron transfer pathway; other site 458233003534 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 458233003535 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 458233003536 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 458233003537 THUMP domain; Region: THUMP; cl12076 458233003538 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233003539 cell division protein GpsB; Provisional; Region: PRK14127 458233003540 DivIVA domain; Region: DivI1A_domain; TIGR03544 458233003541 Protein of unknown function (DUF972); Region: DUF972; cl01853 458233003542 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 458233003543 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 458233003544 Recombination protein U; Region: RecU; cl01314 458233003545 Transglycosylase; Region: Transgly; cl07896 458233003546 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 458233003547 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233003548 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 458233003549 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233003550 minor groove reading motif; other site 458233003551 helix-hairpin-helix signature motif; other site 458233003552 substrate binding pocket [chemical binding]; other site 458233003553 active site 458233003554 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 458233003555 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 458233003556 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233003557 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 458233003558 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 458233003559 putative dimer interface [polypeptide binding]; other site 458233003560 putative anticodon binding site; other site 458233003561 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...; Region: AsxRS_core; cd00776 458233003562 homodimer interface [polypeptide binding]; other site 458233003563 motif 1; other site 458233003564 motif 2; other site 458233003565 active site 458233003566 motif 3; other site 458233003567 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 458233003568 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458233003569 active site 458233003570 substrate binding site [chemical binding]; other site 458233003571 catalytic site [active] 458233003572 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233003573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233003574 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458233003575 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 458233003576 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 458233003577 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458233003578 active site 458233003579 NTP binding site [chemical binding]; other site 458233003580 metal binding triad [ion binding]; metal-binding site 458233003581 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458233003582 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 458233003583 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...; Region: GT1_like_5; cd04962 458233003584 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458233003585 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233003586 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 458233003587 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233003588 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 458233003589 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 458233003590 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: cytochrome_b_C; cl00193 458233003591 interchain domain interface [polypeptide binding]; other site 458233003592 intrachain domain interface; other site 458233003593 Qi binding site; other site 458233003594 Qo binding site; other site 458233003595 Cytochrome c; Region: Cytochrom_C; cl11414 458233003596 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 458233003597 interchain domain interface [polypeptide binding]; other site 458233003598 intrachain domain interface; other site 458233003599 heme bH binding site [chemical binding]; other site 458233003600 heme bL binding site [chemical binding]; other site 458233003601 Qo binding site; other site 458233003602 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 458233003603 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)...; Region: Rieske; cd03467 458233003604 iron-sulfur cluster [ion binding]; other site 458233003605 [2Fe-2S] cluster binding site [ion binding]; other site 458233003606 Protein of unknown function (DUF2487); Region: DUF2487; pfam10673 458233003607 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 458233003608 binding surface 458233003609 TPR motif; other site 458233003610 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 458233003611 binding surface 458233003612 TPR motif; other site 458233003613 tetratricopeptide repeat protein; Provisional; Region: PRK11788 458233003614 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 458233003615 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 458233003616 hinge; other site 458233003617 active site 458233003618 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 458233003619 active site 458233003620 dimer interface [polypeptide binding]; other site 458233003621 metal binding site [ion binding]; metal-binding site 458233003622 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 458233003623 Tetramer interface [polypeptide binding]; other site 458233003624 Active site [active] 458233003625 FMN-binding site [chemical binding]; other site 458233003626 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 458233003627 active site 458233003628 multimer interface [polypeptide binding]; other site 458233003629 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458233003630 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458233003631 substrate binding pocket [chemical binding]; other site 458233003632 chain length determination region; other site 458233003633 substrate-Mg2+ binding site; other site 458233003634 catalytic residues [active] 458233003635 aspartate-rich region 1; other site 458233003636 active site lid residues [active] 458233003637 aspartate-rich region 2; other site 458233003638 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 458233003639 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 458233003640 S-adenosylmethionine binding site [chemical binding]; other site 458233003641 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 458233003642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003643 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 458233003644 GTP-binding protein Der; Reviewed; Region: PRK00093 458233003645 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 458233003646 G1 box; other site 458233003647 GTP/Mg2+ binding site [chemical binding]; other site 458233003648 Switch I region; other site 458233003649 G2 box; other site 458233003650 Switch II region; other site 458233003651 G3 box; other site 458233003652 G4 box; other site 458233003653 G5 box; other site 458233003654 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 458233003655 G1 box; other site 458233003656 GTP/Mg2+ binding site [chemical binding]; other site 458233003657 Switch I region; other site 458233003658 G2 box; other site 458233003659 G3 box; other site 458233003660 Switch II region; other site 458233003661 G4 box; other site 458233003662 G5 box; other site 458233003663 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 458233003664 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 458233003665 RNA binding site [nucleotide binding]; other site 458233003666 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 458233003667 RNA binding site [nucleotide binding]; other site 458233003668 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 458233003669 RNA binding site [nucleotide binding]; other site 458233003670 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 458233003671 RNA binding site [nucleotide binding]; other site 458233003672 cytidylate kinase; Provisional; Region: cmk; PRK00023 458233003673 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 458233003674 CMP-binding site; other site 458233003675 The sites determining sugar specificity; other site 458233003676 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 458233003677 active site/substrate binding site [active] 458233003678 tetramer interface [polypeptide binding]; other site 458233003679 putative bacillithiol system thiol disulfide oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 458233003680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003682 FOG: CBS domain [General function prediction only]; Region: COG0517 458233003683 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-...; Region: CBS_pair; cl09141 458233003684 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 458233003685 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 458233003686 ATP binding site [chemical binding]; other site 458233003687 putative Mg++ binding site [ion binding]; other site 458233003688 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 458233003689 nucleotide binding region [chemical binding]; other site 458233003690 ATP-binding site [chemical binding]; other site 458233003691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 458233003692 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 458233003693 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 connected by an extended linker. The...; Region: HAMP; cd06225 458233003694 dimerization interface [polypeptide binding]; other site 458233003695 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 458233003696 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458233003697 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 trans-...; Region: HisKA; cd00082 458233003698 dimer interface [polypeptide binding]; other site 458233003699 phosphorylation site [posttranslational modification] 458233003700 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 458233003701 ATP binding site [chemical binding]; other site 458233003702 Mg2+ binding site [ion binding]; other site 458233003703 G-X-G motif; other site 458233003704 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233003705 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 458233003706 active site 458233003707 phosphorylation site [posttranslational modification] 458233003708 intermolecular recognition site; other site 458233003709 dimerization interface [polypeptide binding]; other site 458233003710 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...; Region: trans_reg_C; cd00383 458233003711 DNA binding site [nucleotide binding] 458233003712 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233003713 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233003714 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 458233003715 ResB-like family; Region: ResB; pfam05140 458233003716 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...; Region: TlpA_like_family; cd02966 458233003717 catalytic residues [active] 458233003718 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233003719 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 458233003720 RNA binding surface [nucleotide binding]; other site 458233003721 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 458233003722 active site 458233003723 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 458233003724 ScpA/B protein; Region: ScpA_ScpB; cl00598 458233003725 Domain of unknown function (DUF309); Region: DUF309; cl00667 458233003726 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 458233003727 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 458233003728 Int/Topo IB signature motif; other site 458233003729 active site 458233003730 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233003731 metal binding site 2 [ion binding]; metal-binding site 458233003732 putative DNA binding helix; other site 458233003733 metal binding site 1 [ion binding]; metal-binding site 458233003734 dimer interface [polypeptide binding]; other site 458233003735 structural Zn2+ binding site [ion binding]; other site 458233003736 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...; Region: ADPRase_NUDT5; cd03424 458233003737 dimer interface [polypeptide binding]; other site 458233003738 ADP-ribose binding site [chemical binding]; other site 458233003739 active site 458233003740 nudix motif; other site 458233003741 metal binding site [ion binding]; metal-binding site 458233003742 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 458233003743 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...; Region: Aldo_ket_red; cd06660 458233003744 active site 458233003745 catalytic tetrad [active] 458233003746 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233003747 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 458233003748 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 458233003749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003750 NAD(P) binding site [chemical binding]; other site 458233003751 active site 458233003752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003753 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 458233003754 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233003755 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 458233003756 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 458233003757 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 458233003758 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233003759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458233003760 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 458233003761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233003762 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 458233003763 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 458233003764 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 458233003765 peptidase T-like protein; Region: PepT-like; TIGR01883 458233003766 metal binding site [ion binding]; metal-binding site 458233003767 putative dimer interface [polypeptide binding]; other site 458233003768 Predicted membrane protein [Function unknown]; Region: COG4129 458233003769 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 458233003770 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 458233003771 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 458233003772 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 458233003773 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458233003774 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 458233003775 NAD binding site [chemical binding]; other site 458233003776 Phe binding site; other site 458233003777 Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins; Region: GDPD_TtGDE_like; cd08563 458233003778 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 458233003779 active site 458233003780 catalytic site [active] 458233003781 metal binding site [ion binding]; metal-binding site 458233003782 dimer interface [polypeptide binding]; other site 458233003783 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 458233003784 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 458233003785 active site 458233003786 phosphorylation site [posttranslational modification] 458233003787 intermolecular recognition site; other site 458233003788 dimerization interface [polypeptide binding]; other site 458233003789 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 458233003790 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 458233003791 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 458233003792 Walker A/P-loop; other site 458233003793 ATP binding site [chemical binding]; other site 458233003794 Q-loop/lid; other site 458233003795 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 458233003796 ABC transporter signature motif; other site 458233003797 Walker B; other site 458233003798 D-loop; other site 458233003799 H-loop/switch region; other site 458233003800 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 458233003801 arginine repressor; Provisional; Region: PRK04280 458233003802 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 458233003803 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 458233003804 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233003805 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458233003806 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 458233003807 TPP-binding site; other site 458233003808 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 458233003809 PYR/PP interface [polypeptide binding]; other site 458233003810 dimer interface [polypeptide binding]; other site 458233003811 TPP binding site [chemical binding]; other site 458233003812 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458233003813 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458233003814 substrate binding pocket [chemical binding]; other site 458233003815 chain length determination region; other site 458233003816 substrate-Mg2+ binding site; other site 458233003817 catalytic residues [active] 458233003818 aspartate-rich region 1; other site 458233003819 active site lid residues [active] 458233003820 aspartate-rich region 2; other site 458233003821 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 458233003822 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 458233003823 generic binding surface II; other site 458233003824 generic binding surface I; other site 458233003825 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 rRNA-...; Region: NusB_Sun; cl00223 458233003826 putative RNA binding site [nucleotide binding]; other site 458233003827 Protein of unknown function (DUF322); Region: DUF322; cl00574 458233003828 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458233003829 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233003830 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233003831 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 458233003832 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458233003833 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 458233003834 carboxyltransferase (CT) interaction site; other site 458233003835 biotinylation site [posttranslational modification]; other site 458233003836 elongation factor P; Validated; Region: PRK00529 458233003837 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 458233003838 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 458233003839 RNA binding site [nucleotide binding]; other site 458233003840 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 458233003841 RNA binding site [nucleotide binding]; other site 458233003842 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458233003843 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458233003844 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 458233003845 active site 458233003846 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 458233003847 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458233003848 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 458233003849 active site residue [active] 458233003850 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 458233003851 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...; Region: GDC-P; cd00613 458233003852 tetramer interface [polypeptide binding]; other site 458233003853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233003854 catalytic residue [active] 458233003855 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 458233003856 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...; Region: GDC-P; cd00613 458233003857 tetramer interface [polypeptide binding]; other site 458233003858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233003859 catalytic residue [active] 458233003860 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 458233003861 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 458233003862 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...; Region: SK; cd00464 458233003863 ADP binding site [chemical binding]; other site 458233003864 magnesium binding site [ion binding]; other site 458233003865 putative shikimate binding site; other site 458233003866 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 458233003867 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 458233003868 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 458233003869 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 458233003870 Type II/IV secretion system protein; Region: GSPII_E; pfam00437 458233003871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233003872 Walker A motif; other site 458233003873 ATP binding site [chemical binding]; other site 458233003874 Walker B motif; other site 458233003875 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233003876 Domain of unknown function DUF77; Region: DUF77; cl00307 458233003877 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 458233003878 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 458233003879 Rhomboid family; Region: Rhomboid; cl11446 458233003880 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 458233003881 binding surface 458233003882 TPR motif; other site 458233003883 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 458233003884 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 458233003885 PhoU domain; Region: PhoU; pfam01895 458233003886 PhoU domain; Region: PhoU; pfam01895 458233003887 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 458233003888 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 458233003889 Walker A/P-loop; other site 458233003890 ATP binding site [chemical binding]; other site 458233003891 Q-loop/lid; other site 458233003892 ABC transporter signature motif; other site 458233003893 Walker B; other site 458233003894 D-loop; other site 458233003895 H-loop/switch region; other site 458233003896 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 458233003897 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...; Region: TM_PBP2; cd06261 458233003898 dimer interface [polypeptide binding]; other site 458233003899 conserved gate region; other site 458233003900 putative PBP binding loops; other site 458233003901 ABC-ATPase subunit interface; other site 458233003902 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...; Region: TM_PBP2; cd06261 458233003903 dimer interface [polypeptide binding]; other site 458233003904 conserved gate region; other site 458233003905 putative PBP binding loops; other site 458233003906 ABC-ATPase subunit interface; other site 458233003907 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 458233003908 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 458233003909 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233003910 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458233003911 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233003912 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 458233003913 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 458233003914 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 458233003915 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 458233003916 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 458233003917 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 458233003918 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl01869 458233003919 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233003920 metal binding site 2 [ion binding]; metal-binding site 458233003921 putative DNA binding helix; other site 458233003922 metal binding site 1 [ion binding]; metal-binding site 458233003923 dimer interface [polypeptide binding]; other site 458233003924 structural Zn2+ binding site [ion binding]; other site 458233003925 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233003926 ABC-ATPase subunit interface; other site 458233003927 dimer interface [polypeptide binding]; other site 458233003928 putative PBP binding regions; other site 458233003929 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 458233003930 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 458233003931 endonuclease IV; Provisional; Region: PRK01060 458233003932 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 D-arabino-6-...; Region: AP2Ec; cd00019 458233003933 AP (apurinic/apyrimidinic) site pocket; other site 458233003934 DNA interaction; other site 458233003935 Metal-binding active site; metal-binding site 458233003936 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 458233003937 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458233003938 ATP binding site [chemical binding]; other site 458233003939 Mg++ binding site [ion binding]; other site 458233003940 motif III; other site 458233003941 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 458233003942 nucleotide binding region [chemical binding]; other site 458233003943 ATP-binding site [chemical binding]; other site 458233003944 LytB protein; Region: LYTB; cl00507 458233003945 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 458233003946 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 458233003947 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 458233003948 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 458233003949 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233003950 NADH dehydrogenase subunit 5; Region: ndhF; CHL00025 458233003951 Cytochrome c; Region: Cytochrom_C; cl11414 458233003952 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 458233003953 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 458233003954 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458233003955 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458233003956 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458233003957 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...; Region: Sigma70_r4; cd06171 458233003958 DNA binding residues [nucleotide binding] 458233003959 DNA primase; Validated; Region: dnaG; PRK05667 458233003960 CHC2 zinc finger; Region: zf-CHC2; cl02597 458233003961 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 458233003962 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 458233003963 active site 458233003964 metal binding site [ion binding]; metal-binding site 458233003965 interdomain interaction site; other site 458233003966 Domain of unknown function (DUF299); Region: DUF299; cl00780 458233003967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233003968 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-...; Region: CBS_pair_4; cd04617 458233003969 FOG: CBS domain [General function prediction only]; Region: COG0517 458233003970 glycyl-tRNA synthetase; Provisional; Region: PRK04173 458233003971 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 458233003972 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...; Region: GlyRS-like_core; cd00774 458233003973 active site 458233003974 motif 2; other site 458233003975 motif 3; other site 458233003976 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 458233003977 anticodon binding site; other site 458233003978 DNA repair protein RecO; Region: reco; TIGR00613 458233003979 Recombination protein O N terminal; Region: RecO_N; pfam11967 458233003980 Recombination protein O C terminal; Region: RecO_C; pfam02565 458233003981 GTPase Era; Reviewed; Region: era; PRK00089 458233003982 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 458233003983 G1 box; other site 458233003984 GTP/Mg2+ binding site [chemical binding]; other site 458233003985 Switch I region; other site 458233003986 G2 box; other site 458233003987 Switch II region; other site 458233003988 G3 box; other site 458233003989 G4 box; other site 458233003990 G5 box; other site 458233003991 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 458233003992 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 458233003993 active site 458233003994 catalytic motif [active] 458233003995 Zn binding site [ion binding]; other site 458233003996 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 458233003997 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 458233003998 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 458233003999 PhoH-like protein; Region: PhoH; cl12134 458233004000 Protein of unknown function (DUF1200); Region: DUF1200; pfam06713 458233004001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4864 458233004002 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 458233004003 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 458233004004 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 458233004005 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458233004006 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 458233004007 FeS/SAM binding site; other site 458233004008 TRAM domain; Region: TRAM; cl01282 458233004009 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 458233004010 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 458233004011 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233004012 chaperone protein DnaJ; Provisional; Region: PRK14280 458233004013 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...; Region: DnaJ; cd06257 458233004014 HSP70 interaction site [polypeptide binding]; other site 458233004015 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 458233004016 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 458233004017 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 458233004018 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 458233004019 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 458233004020 dimer interface [polypeptide binding]; other site 458233004021 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 458233004022 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 458233004023 HrcA protein C terminal domain; Region: HrcA; pfam01628 458233004024 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 458233004025 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 458233004026 FeS/SAM binding site; other site 458233004027 HemN C-terminal region; Region: HemN_C; pfam06969 458233004028 GTP-binding protein LepA; Provisional; Region: PRK05433 458233004029 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 458233004030 G1 box; other site 458233004031 putative GEF interaction site [polypeptide binding]; other site 458233004032 GTP/Mg2+ binding site [chemical binding]; other site 458233004033 Switch I region; other site 458233004034 G2 box; other site 458233004035 G3 box; other site 458233004036 Switch II region; other site 458233004037 G4 box; other site 458233004038 G5 box; other site 458233004039 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-...; Region: lepA_II; cd03699 458233004040 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 458233004041 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 458233004042 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 458233004043 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 458233004044 Competence protein; Region: Competence; cl00471 458233004045 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233004046 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 458233004047 catalytic motif [active] 458233004048 Zn binding site [ion binding]; other site 458233004049 comEA protein; Region: comE; TIGR01259 458233004050 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458233004051 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 458233004052 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 458233004053 S-adenosylmethionine binding site [chemical binding]; other site 458233004054 Domain of unknown function DUF143; Region: DUF143; cl00519 458233004055 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 458233004056 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233004057 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 458233004058 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 458233004059 active site 458233004060 (T/H)XGH motif; other site 458233004061 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 458233004062 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 458233004063 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 458233004064 shikimate binding site; other site 458233004065 NAD(P) binding site [chemical binding]; other site 458233004066 GTPase YqeH; Provisional; Region: PRK13796 458233004067 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 458233004068 GTP/Mg2+ binding site [chemical binding]; other site 458233004069 G4 box; other site 458233004070 G5 box; other site 458233004071 G1 box; other site 458233004072 Switch I region; other site 458233004073 G2 box; other site 458233004074 G3 box; other site 458233004075 Switch II region; other site 458233004076 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 458233004077 motif II; other site 458233004078 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458233004079 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 458233004080 domain; Region: GreA_GreB_N; pfam03449 458233004081 C-term; Region: GreA_GreB; pfam01272 458233004082 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...; Region: UMPK; cd02023 458233004083 Sugar specificity; other site 458233004084 Pyrimidine base specificity; other site 458233004085 ATP-binding site [chemical binding]; other site 458233004086 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458233004087 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 458233004088 Peptidase family U32; Region: Peptidase_U32; cl03113 458233004089 Peptidase family U32; Region: Peptidase_U32; cl03113 458233004090 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233004091 YceG-like family; Region: YceG; pfam02618 458233004092 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 458233004093 dimerization interface [polypeptide binding]; other site 458233004094 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 458233004095 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 458233004096 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 458233004097 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 458233004098 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 458233004099 motif 1; other site 458233004100 active site 458233004101 motif 2; other site 458233004102 motif 3; other site 458233004103 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 458233004104 DHHA1 domain; Region: DHHA1; pfam02272 458233004105 RecD/TraA family; Region: recD_rel; TIGR01448 458233004106 Putative ATPase (DUF699); Region: DUF699; pfam05127 458233004107 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 458233004108 binding surface 458233004109 TPR motif; other site 458233004110 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 458233004111 binding surface 458233004112 TPR motif; other site 458233004113 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 458233004114 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 458233004115 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 458233004116 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 458233004117 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233004118 catalytic residue [active] 458233004119 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 458233004120 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 458233004121 Predicted transcriptional regulator [Transcription]; Region: COG1959 458233004122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233004123 recombination factor protein RarA; Reviewed; Region: PRK13342 458233004124 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...; Region: AAA; cd00009 458233004125 Walker A motif; other site 458233004126 ATP binding site [chemical binding]; other site 458233004127 Walker B motif; other site 458233004128 arginine finger; other site 458233004129 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 458233004130 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 458233004131 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-...; Region: YgdL_like; cd00755 458233004132 putative ATP binding site [chemical binding]; other site 458233004133 putative substrate interface [chemical binding]; other site 458233004134 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 458233004135 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 458233004136 dimer interface [polypeptide binding]; other site 458233004137 anticodon binding site; other site 458233004138 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 458233004139 homodimer interface [polypeptide binding]; other site 458233004140 motif 1; other site 458233004141 active site 458233004142 motif 2; other site 458233004143 GAD domain; Region: GAD; pfam02938 458233004144 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 458233004145 motif 3; other site 458233004146 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 458233004147 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 458233004148 dimer interface [polypeptide binding]; other site 458233004149 motif 1; other site 458233004150 active site 458233004151 motif 2; other site 458233004152 motif 3; other site 458233004153 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 458233004154 anticodon binding site; other site 458233004155 Bacterial SH3 domain; Region: SH3_3; cl02551 458233004156 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 458233004157 active site 458233004158 metal binding site [ion binding]; metal-binding site 458233004159 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...; Region: Dtyr_deacylase; cd00563 458233004160 putative active site [active] 458233004161 dimerization interface [polypeptide binding]; other site 458233004162 putative tRNAtyr binding site [nucleotide binding]; other site 458233004163 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 458233004164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233004165 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458233004166 synthetase active site [active] 458233004167 NTP binding site [chemical binding]; other site 458233004168 metal binding site [ion binding]; metal-binding site 458233004169 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...; Region: TGS_RelA_SpoT; cd01668 458233004170 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458233004171 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233004172 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 458233004173 DHH family; Region: DHH; pfam01368 458233004174 DHHA1 domain; Region: DHHA1; pfam02272 458233004175 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 458233004176 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233004177 M20 Peptidase Aminoacylase 1 amhX_like subfamily; Region: M20_Acy1_amhX_like; cd08018 458233004178 metal binding site [ion binding]; metal-binding site 458233004179 putative dimer interface [polypeptide binding]; other site 458233004180 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458233004181 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...; Region: L-Ala-DL-Glu_epimerase; cd03319 458233004182 active site 458233004183 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 458233004184 Protein export membrane protein; Region: SecD_SecF; cl14618 458233004185 Protein export membrane protein; Region: SecD_SecF; cl14618 458233004186 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 458233004187 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 458233004188 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 458233004189 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 458233004190 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...; Region: AAA; cd00009 458233004191 Walker A motif; other site 458233004192 ATP binding site [chemical binding]; other site 458233004193 Walker B motif; other site 458233004194 arginine finger; other site 458233004195 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 458233004196 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 458233004197 RuvA N terminal domain; Region: RuvA_N; pfam01330 458233004198 hypothetical protein; Provisional; Region: PRK04435 458233004199 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-...; Region: CBS_pair; cl09141 458233004200 GTPase CgtA; Reviewed; Region: obgE; PRK12297 458233004201 GTP1/OBG; Region: GTP1_OBG; pfam01018 458233004202 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 458233004203 G1 box; other site 458233004204 GTP/Mg2+ binding site [chemical binding]; other site 458233004205 Switch I region; other site 458233004206 G2 box; other site 458233004207 G3 box; other site 458233004208 Switch II region; other site 458233004209 G4 box; other site 458233004210 G5 box; other site 458233004211 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 458233004212 Protein of unknown function (DUF464); Region: DUF464; cl01080 458233004213 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 458233004214 rod shape-determining protein MreC; Provisional; Region: PRK13922 458233004215 rod shape-determining protein MreC; Region: MreC; pfam04085 458233004216 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 458233004217 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233004218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233004219 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233004220 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233004221 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 458233004222 Walker A/P-loop; other site 458233004223 ATP binding site [chemical binding]; other site 458233004224 Q-loop/lid; other site 458233004225 ABC transporter signature motif; other site 458233004226 Walker B; other site 458233004227 D-loop; other site 458233004228 H-loop/switch region; other site 458233004229 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 458233004230 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233004231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233004232 Walker A/P-loop; other site 458233004233 ATP binding site [chemical binding]; other site 458233004234 Q-loop/lid; other site 458233004235 ABC transporter signature motif; other site 458233004236 Walker B; other site 458233004237 D-loop; other site 458233004238 H-loop/switch region; other site 458233004239 hypothetical protein; Reviewed; Region: PRK00024 458233004240 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458233004241 MPN+ (JAMM) motif; other site 458233004242 Zinc-binding site [ion binding]; other site 458233004243 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 458233004244 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 458233004245 Predicted membrane protein [Function unknown]; Region: COG1288 458233004246 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; cl09110 458233004247 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 458233004248 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233004249 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233004250 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 458233004251 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233004252 active site 458233004253 HIGH motif; other site 458233004254 nucleotide binding site [chemical binding]; other site 458233004255 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458233004256 active site 458233004257 KMSKS motif; other site 458233004258 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 458233004259 tRNA binding surface [nucleotide binding]; other site 458233004260 anticodon binding site; other site 458233004261 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 458233004262 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 458233004263 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 458233004264 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 458233004265 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 458233004266 inhibitor-cofactor binding pocket; inhibition site 458233004267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233004268 catalytic residue [active] 458233004269 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 458233004270 dimer interface [polypeptide binding]; other site 458233004271 active site 458233004272 Schiff base residues; other site 458233004273 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...; Region: HemD; cd06578 458233004274 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 458233004275 active site 458233004276 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 458233004277 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 458233004278 domain interfaces; other site 458233004279 active site 458233004280 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458233004281 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 458233004282 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 458233004283 tRNA; other site 458233004284 putative tRNA binding site [nucleotide binding]; other site 458233004285 putative NADP binding site [chemical binding]; other site 458233004286 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 458233004287 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 458233004288 G1 box; other site 458233004289 GTP/Mg2+ binding site [chemical binding]; other site 458233004290 Switch I region; other site 458233004291 G2 box; other site 458233004292 G3 box; other site 458233004293 Switch II region; other site 458233004294 G4 box; other site 458233004295 G5 box; other site 458233004296 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 458233004297 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 458233004298 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...; Region: AAA; cd00009 458233004299 Walker A motif; other site 458233004300 ATP binding site [chemical binding]; other site 458233004301 Walker B motif; other site 458233004302 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458233004303 trigger factor; Provisional; Region: tig; PRK01490 458233004304 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 458233004305 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 458233004306 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 458233004307 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 458233004308 NAD+ binding site [chemical binding]; other site 458233004309 substrate binding site [chemical binding]; other site 458233004310 Zn binding site [ion binding]; other site 458233004311 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 458233004312 active site 458233004313 metal binding site [ion binding]; metal-binding site 458233004314 homotetramer interface [polypeptide binding]; other site 458233004315 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 Ham1-...; Region: HAM1; cd00515 458233004316 active site 458233004317 dimerization interface [polypeptide binding]; other site 458233004318 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 458233004319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233004320 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 458233004321 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 alpha-; Region: HCP_like; cl14655 458233004322 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 458233004323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004324 domain; Region: Succ_DH_flav_C; pfam02910 458233004325 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...; Region: SQR_TypeB_1_TM; cd03497 458233004326 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 458233004327 putative Iron-sulfur protein interface [polypeptide binding]; other site 458233004328 proximal heme binding site [chemical binding]; other site 458233004329 distal heme binding site [chemical binding]; other site 458233004330 putative dimer interface [polypeptide binding]; other site 458233004331 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 458233004332 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 458233004333 GIY-YIG motif/motif A; other site 458233004334 active site 458233004335 catalytic site [active] 458233004336 putative DNA binding site [nucleotide binding]; other site 458233004337 metal binding site [ion binding]; metal-binding site 458233004338 UvrB/uvrC motif; Region: UVR; pfam02151 458233004339 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 458233004340 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 458233004341 catalytic residues [active] 458233004342 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 458233004343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233004344 Walker A/P-loop; other site 458233004345 ATP binding site [chemical binding]; other site 458233004346 Q-loop/lid; other site 458233004347 ABC transporter signature motif; other site 458233004348 Walker B; other site 458233004349 D-loop; other site 458233004350 H-loop/switch region; other site 458233004351 Smr domain; Region: Smr; cl02619 458233004352 hypothetical protein; Provisional; Region: PRK08609 458233004353 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 458233004354 active site 458233004355 primer binding site [nucleotide binding]; other site 458233004356 NTP binding site [chemical binding]; other site 458233004357 metal binding triad [ion binding]; metal-binding site 458233004358 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 458233004359 Colicin V production protein; Region: Colicin_V; cl00567 458233004360 ribonuclease HIII; Provisional; Region: PRK00996 458233004361 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 458233004362 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 458233004363 RNA/DNA hybrid binding site [nucleotide binding]; other site 458233004364 active site 458233004365 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 458233004366 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 458233004367 putative tRNA-binding site [nucleotide binding]; other site 458233004368 B3/4 domain; Region: B3_4; cl11458 458233004369 tRNA synthetase B5 domain; Region: B5; cl08394 458233004370 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 458233004371 dimer interface [polypeptide binding]; other site 458233004372 motif 1; other site 458233004373 motif 3; other site 458233004374 motif 2; other site 458233004375 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 458233004376 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 458233004377 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 458233004378 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 458233004379 dimer interface [polypeptide binding]; other site 458233004380 motif 1; other site 458233004381 active site 458233004382 motif 2; other site 458233004383 motif 3; other site 458233004384 chromosome segregation protein; Provisional; Region: PRK02224 458233004385 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 458233004386 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 458233004387 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458233004388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233004389 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 458233004390 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 458233004391 dimer interface [polypeptide binding]; other site 458233004392 PYR/PP interface [polypeptide binding]; other site 458233004393 TPP binding site [chemical binding]; other site 458233004394 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458233004395 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 pyruvate to acetaldehyde and CO2. It is able to utilize...; Region: TPP_PDC_IPDC; cd02005 458233004396 TPP-binding site [chemical binding]; other site 458233004397 dimer interface [polypeptide binding]; other site 458233004398 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458233004399 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458233004400 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; cl09110 458233004401 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 458233004402 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 458233004403 S-adenosylmethionine binding site [chemical binding]; other site 458233004404 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233004405 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 458233004406 oligomer interface [polypeptide binding]; other site 458233004407 active site 458233004408 metal binding site [ion binding]; metal-binding site 458233004409 Protein of unknown function (DUF819); Region: DUF819; cl02317 458233004410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 458233004411 MOSC domain; Region: MOSC; pfam03473 458233004412 3-alpha domain; Region: 3-alpha; pfam03475 458233004413 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 458233004414 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 458233004415 [2Fe-2S] cluster binding site [ion binding]; other site 458233004416 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 458233004417 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004418 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 458233004419 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 458233004420 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458233004421 precorrin-2 dehydrogenase; Validated; Region: PRK06719 458233004422 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...; Region: CbiX_SirB_N; cd03416 458233004423 putative active site [active] 458233004424 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...; Region: Chelatase_Class_II; cl02784 458233004425 active site 458233004426 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 458233004427 23S rRNA binding site [nucleotide binding]; other site 458233004428 L21 binding site [polypeptide binding]; other site 458233004429 L13 binding site [polypeptide binding]; other site 458233004430 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 458233004431 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 458233004432 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 458233004433 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 458233004434 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233004435 Amino acid permease; Region: AA_permease; pfam00324 458233004436 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 458233004437 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...; Region: TGS_ThrRS_N; cd01667 458233004438 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 458233004439 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 458233004440 active site 458233004441 dimer interface [polypeptide binding]; other site 458233004442 motif 1; other site 458233004443 motif 2; other site 458233004444 motif 3; other site 458233004445 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 458233004446 anticodon binding site; other site 458233004447 primosomal protein DnaI; Reviewed; Region: PRK08939 458233004448 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 458233004449 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...; Region: AAA; cd00009 458233004450 Walker A motif; other site 458233004451 ATP binding site [chemical binding]; other site 458233004452 Walker B motif; other site 458233004453 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 458233004454 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233004455 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 458233004456 ATP cone domain; Region: ATP-cone; pfam03477 458233004457 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 458233004458 active site 458233004459 catalytic triad [active] 458233004460 oxyanion hole [active] 458233004461 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 458233004462 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 458233004463 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 458233004464 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 458233004465 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458233004466 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 458233004467 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 458233004468 CoA-binding site [chemical binding]; other site 458233004469 ATP-binding [chemical binding]; other site 458233004470 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 458233004471 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 458233004472 DNA binding site [nucleotide binding] 458233004473 catalytic residue [active] 458233004474 H2TH interface [polypeptide binding]; other site 458233004475 putative catalytic residues [active] 458233004476 turnover-facilitating residue; other site 458233004477 intercalation triad [nucleotide binding]; other site 458233004478 8OG recognition residue [nucleotide binding]; other site 458233004479 putative reading head residues; other site 458233004480 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 458233004481 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458233004482 DNA polymerase I; Provisional; Region: PRK05755 458233004483 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458233004484 active site 458233004485 metal binding site 1 [ion binding]; metal-binding site 458233004486 putative 5' ssDNA interaction site; other site 458233004487 metal binding site 3; metal-binding site 458233004488 metal binding site 2 [ion binding]; metal-binding site 458233004489 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458233004490 putative DNA binding site [nucleotide binding]; other site 458233004491 putative metal binding site [ion binding]; other site 458233004492 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 458233004493 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 458233004494 active site 458233004495 DNA binding site [nucleotide binding] 458233004496 catalytic site [active] 458233004497 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458233004498 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 trans-...; Region: HisKA; cd00082 458233004499 dimer interface [polypeptide binding]; other site 458233004500 phosphorylation site [posttranslational modification] 458233004501 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 458233004502 ATP binding site [chemical binding]; other site 458233004503 Mg2+ binding site [ion binding]; other site 458233004504 G-X-G motif; other site 458233004505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233004506 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 458233004507 active site 458233004508 phosphorylation site [posttranslational modification] 458233004509 intermolecular recognition site; other site 458233004510 dimerization interface [polypeptide binding]; other site 458233004511 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...; Region: trans_reg_C; cd00383 458233004512 DNA binding site [nucleotide binding] 458233004513 malate dehydrogenase; Reviewed; Region: PRK06223 458233004514 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 458233004515 NAD(P) binding site [chemical binding]; other site 458233004516 dimer interface [polypeptide binding]; other site 458233004517 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233004518 substrate binding site [chemical binding]; other site 458233004519 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 458233004520 isocitrate dehydrogenase; Validated; Region: PRK07362 458233004521 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...; Region: BSuCS-II_like; cd06110 458233004522 dimer interface [polypeptide binding]; other site 458233004523 Citrate synthase; Region: Citrate_synt; pfam00285 458233004524 active site 458233004525 citrylCoA binding site [chemical binding]; other site 458233004526 oxalacetate/citrate binding site [chemical binding]; other site 458233004527 coenzyme A binding site [chemical binding]; other site 458233004528 catalytic triad [active] 458233004529 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233004530 pyruvate kinase; Provisional; Region: PRK06354 458233004531 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 458233004532 domain interfaces; other site 458233004533 active site 458233004534 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 458233004535 6-phosphofructokinase; Provisional; Region: PRK03202 458233004536 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 458233004537 active site 458233004538 ADP/pyrophosphate binding site [chemical binding]; other site 458233004539 dimerization interface [polypeptide binding]; other site 458233004540 allosteric effector site; other site 458233004541 fructose-1,6-bisphosphate binding site; other site 458233004542 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 458233004543 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 458233004544 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 458233004545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233004546 Predicted transcriptional regulator [Transcription]; Region: COG1959 458233004547 DNA-binding site [nucleotide binding]; DNA binding site 458233004548 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 458233004549 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 458233004550 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 458233004551 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...; Region: DnaE_OBF; cd04485 458233004552 generic binding surface I; other site 458233004553 generic binding surface II; other site 458233004554 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 458233004555 DHH family; Region: DHH; pfam01368 458233004556 DHHA1 domain; Region: DHHA1; pfam02272 458233004557 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 458233004558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233004559 DNA-binding site [nucleotide binding]; DNA binding site 458233004560 DRTGG domain; Region: DRTGG; cl12147 458233004561 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 458233004562 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458233004563 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458233004564 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458233004565 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 458233004566 active site 458233004567 CutC family; Region: CutC; cl01218 458233004568 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 458233004569 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 458233004570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004571 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 458233004572 Ligand Binding Site [chemical binding]; other site 458233004573 Acetokinase family; Region: Acetate_kinase; cl01029 458233004574 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 458233004575 S-adenosylmethionine binding site [chemical binding]; other site 458233004576 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 458233004577 dimer interface [polypeptide binding]; other site 458233004578 catalytic triad [active] 458233004579 peroxidatic and resolving cysteines [active] 458233004580 RDD family; Region: RDD; cl00746 458233004581 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458233004582 tandem repeat interface [polypeptide binding]; other site 458233004583 oligomer interface [polypeptide binding]; other site 458233004584 active site residues [active] 458233004585 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458233004586 ATP-NAD kinase; Region: NAD_kinase; pfam01513 458233004587 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 458233004588 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458233004589 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 458233004590 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 458233004591 active site 458233004592 catalytic site [active] 458233004593 metal binding site [ion binding]; metal-binding site 458233004594 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 458233004595 THUMP domain; Region: THUMP; cl12076 458233004596 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 458233004597 Ligand Binding Site [chemical binding]; other site 458233004598 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 458233004599 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 458233004600 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233004601 catalytic residue [active] 458233004602 septation ring formation regulator EzrA; Provisional; Region: PRK04778 458233004603 GAF domain; Region: GAF; cl00853 458233004604 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 458233004605 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 458233004606 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 458233004607 RNA binding surface [nucleotide binding]; other site 458233004608 OsmC-like protein; Region: OsmC; cl00767 458233004609 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458233004610 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 458233004611 Integrase core domain; Region: rve; cl01316 458233004612 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233004613 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233004614 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 458233004615 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233004616 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 458233004617 Phage integrase family; Region: Phage_integrase; pfam00589 458233004618 Int/Topo IB signature motif; other site 458233004619 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 458233004620 dimerization interface [polypeptide binding]; other site 458233004621 putative DNA binding site [nucleotide binding]; other site 458233004622 putative Zn2+ binding site [ion binding]; other site 458233004623 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 458233004624 Cadmium resistance transporter; Region: Cad; cl04177 458233004625 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 458233004626 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 458233004627 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458233004628 active sites [active] 458233004629 tetramer interface [polypeptide binding]; other site 458233004630 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458233004631 putative acyl-acceptor binding pocket; other site 458233004632 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 458233004633 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 C-...; Region: PDZ_serine_protease; cd00987 458233004634 protein binding site [polypeptide binding]; other site 458233004635 Domain of unknown function (DUF477); Region: DUF477; cl01535 458233004636 LemA family; Region: LemA; cl00742 458233004637 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 458233004638 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 458233004639 active site 458233004640 HIGH motif; other site 458233004641 dimer interface [polypeptide binding]; other site 458233004642 KMSKS motif; other site 458233004643 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 458233004644 RNA binding surface [nucleotide binding]; other site 458233004645 Transglycosylase; Region: Transgly; cl07896 458233004646 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 458233004647 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 458233004648 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 458233004649 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 458233004650 Potassium binding sites [ion binding]; other site 458233004651 Cesium cation binding sites [ion binding]; other site 458233004652 acetyl-CoA synthetase; Provisional; Region: PRK04319 458233004653 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 458233004654 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 458233004655 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 458233004656 FOG: CBS domain [General function prediction only]; Region: COG0517 458233004657 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 458233004658 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-...; Region: CBS_pair; cl09141 458233004659 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 458233004660 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 458233004661 catabolite control protein A; Region: ccpA; TIGR01481 458233004662 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458233004663 DNA binding site [nucleotide binding] 458233004664 domain linker motif; other site 458233004665 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233004666 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 458233004667 Chorismate mutase type II; Region: CM_2; cl00693 458233004668 NeuB family; Region: NeuB; cl00496 458233004669 YtxH-like protein; Region: YtxH; cl02079 458233004670 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 458233004671 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 458233004672 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233004673 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233004674 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233004675 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 458233004676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233004677 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 458233004678 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 458233004679 putative tRNA-binding site [nucleotide binding]; other site 458233004680 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 458233004681 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 458233004682 catalytic residues [active] 458233004683 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233004684 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458233004685 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 458233004686 Walker A/P-loop; other site 458233004687 ATP binding site [chemical binding]; other site 458233004688 Q-loop/lid; other site 458233004689 ABC transporter signature motif; other site 458233004690 Walker B; other site 458233004691 D-loop; other site 458233004692 H-loop/switch region; other site 458233004693 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...; Region: TM_PBP2; cd06261 458233004694 dimer interface [polypeptide binding]; other site 458233004695 conserved gate region; other site 458233004696 putative PBP binding loops; other site 458233004697 ABC-ATPase subunit interface; other site 458233004698 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 458233004699 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...; Region: PBPb; cd00134 458233004700 substrate binding pocket [chemical binding]; other site 458233004701 membrane-bound complex binding site; other site 458233004702 hinge residues; other site 458233004703 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 458233004704 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 458233004705 oligomer interface [polypeptide binding]; other site 458233004706 active site 458233004707 metal binding site [ion binding]; metal-binding site 458233004708 aspartate aminotransferase; Provisional; Region: PRK08361 458233004709 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 458233004710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233004711 homodimer interface [polypeptide binding]; other site 458233004712 catalytic residue [active] 458233004713 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 458233004714 S-adenosylmethionine binding site [chemical binding]; other site 458233004715 Phosphotransferase enzyme family; Region: APH; pfam01636 458233004716 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 458233004717 substrate binding site [chemical binding]; other site 458233004718 dipeptidase PepV; Reviewed; Region: PRK07318 458233004719 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 458233004720 active site 458233004721 metal binding site [ion binding]; metal-binding site 458233004722 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458233004723 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 458233004724 active site 458233004725 uracil binding [chemical binding]; other site 458233004726 stage V sporulation protein B; Region: spore_V_B; TIGR02900 458233004727 MatE; Region: MatE; cl10513 458233004728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004729 flavoprotein, HI0933 family; Region: TIGR00275 458233004730 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 458233004731 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458233004732 HIGH motif; other site 458233004733 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458233004734 active site 458233004735 KMSKS motif; other site 458233004736 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 458233004737 tRNA binding surface [nucleotide binding]; other site 458233004738 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 458233004739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233004740 putative substrate translocation pore; other site 458233004741 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 458233004742 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; cl15259 458233004743 hypothetical protein; Provisional; Region: PRK08317 458233004744 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233004745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233004746 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458233004747 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233004748 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 458233004749 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 458233004750 trimer interface [polypeptide binding]; other site 458233004751 putative metal binding site [ion binding]; other site 458233004752 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 458233004753 dimer interface [polypeptide binding]; other site 458233004754 FMN binding site [chemical binding]; other site 458233004755 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233004756 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 458233004757 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 458233004758 motif II; other site 458233004759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 458233004760 putative transposase OrfB; Reviewed; Region: PHA02517 458233004761 Integrase core domain; Region: rve; cl01316 458233004762 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 458233004763 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 458233004764 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458233004765 active site 458233004766 nucleotide binding site [chemical binding]; other site 458233004767 HIGH motif; other site 458233004768 KMSKS motif; other site 458233004769 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 458233004770 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 458233004771 Proline dehydrogenase; Region: Pro_dh; cl03282 458233004772 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 458233004773 homopentamer interface [polypeptide binding]; other site 458233004774 active site 458233004775 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 458233004776 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 458233004777 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 458233004778 dimerization interface [polypeptide binding]; other site 458233004779 active site 458233004780 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 458233004781 Lumazine binding domain; Region: Lum_binding; pfam00677 458233004782 Lumazine binding domain; Region: Lum_binding; pfam00677 458233004783 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 458233004784 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 458233004785 catalytic motif [active] 458233004786 Zn binding site [ion binding]; other site 458233004787 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 5,10-...; Region: DHFR; cl00161 458233004788 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458233004789 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 458233004790 active site 458233004791 urocanate hydratase; Provisional; Region: PRK05414 458233004792 urocanate hydratase; Region: hutU; TIGR01228 458233004793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458233004794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233004795 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 458233004796 dimerization interface [polypeptide binding]; other site 458233004797 Arginase family; Region: Arginase; cl00306 458233004798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 458233004799 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 458233004800 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 458233004801 Walker A/P-loop; other site 458233004802 ATP binding site [chemical binding]; other site 458233004803 Q-loop/lid; other site 458233004804 ABC transporter signature motif; other site 458233004805 Walker B; other site 458233004806 D-loop; other site 458233004807 H-loop/switch region; other site 458233004808 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 458233004809 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...; Region: TM_PBP2; cd06261 458233004810 dimer interface [polypeptide binding]; other site 458233004811 conserved gate region; other site 458233004812 putative PBP binding loops; other site 458233004813 ABC-ATPase subunit interface; other site 458233004814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 458233004815 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 458233004816 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...; Region: TM_PBP2; cd06261 458233004817 dimer interface [polypeptide binding]; other site 458233004818 conserved gate region; other site 458233004819 putative PBP binding loops; other site 458233004820 ABC-ATPase subunit interface; other site 458233004821 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 458233004822 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 458233004823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233004824 Staphylococcal nuclease homologues; Region: SNc; smart00318 458233004825 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 458233004826 Catalytic site; other site 458233004827 Excalibur calcium-binding domain; Region: Excalibur; cl05460 458233004828 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458233004829 Domain of unknown function DUF21; Region: DUF21; pfam01595 458233004830 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 458233004831 Transporter associated domain; Region: CorC_HlyC; cl08393 458233004832 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458233004833 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 458233004834 DNA binding residues [nucleotide binding] 458233004835 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 458233004836 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458233004837 NAD binding site [chemical binding]; other site 458233004838 catalytic Zn binding site [ion binding]; other site 458233004839 structural Zn binding site [ion binding]; other site 458233004840 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458233004841 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458233004842 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 458233004843 putative dimer interface [polypeptide binding]; other site 458233004844 DinB superfamily; Region: DinB_2; cl00986 458233004845 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 458233004846 additional DNA contacts [nucleotide binding]; other site 458233004847 mismatch recognition site; other site 458233004848 active site 458233004849 zinc binding site [ion binding]; other site 458233004850 DNA intercalation site [nucleotide binding]; other site 458233004851 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233004852 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 458233004853 cofactor binding site; other site 458233004854 DNA binding site [nucleotide binding] 458233004855 substrate interaction site [chemical binding]; other site 458233004856 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233004857 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 458233004858 putative active site [active] 458233004859 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 458233004860 putative active site [active] 458233004861 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 458233004862 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 458233004863 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 458233004864 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 458233004865 dimerization interface [polypeptide binding]; other site 458233004866 putative DNA binding site [nucleotide binding]; other site 458233004867 putative Zn2+ binding site [ion binding]; other site 458233004868 arsenical pump membrane protein; Provisional; Region: PRK15445 458233004869 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 458233004870 transmembrane helices; other site 458233004871 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458233004872 Active site [active] 458233004873 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 458233004874 LamB/YcsF family; Region: LamB_YcsF; cl00664 458233004875 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458233004876 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458233004877 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233004878 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 458233004879 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458233004880 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 458233004881 carboxyltransferase (CT) interaction site; other site 458233004882 biotinylation site [posttranslational modification]; other site 458233004883 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 458233004884 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 458233004885 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 458233004886 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 458233004887 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 458233004888 putative active site [active] 458233004889 catalytic triad [active] 458233004890 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 458233004891 PA/protease domain interface [polypeptide binding]; other site 458233004892 putative integrin binding motif; other site 458233004893 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 458233004894 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 458233004895 active site 458233004896 intersubunit interactions; other site 458233004897 catalytic residue [active] 458233004898 CrcB-like protein; Region: CRCB; cl09114 458233004899 CrcB-like protein; Region: CRCB; cl09114 458233004900 Nuclease-related domain; Region: NERD; pfam08378 458233004901 S-adenosylmethionine synthetase; Validated; Region: PRK05250 458233004902 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 458233004903 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 458233004904 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 458233004905 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 458233004906 active site 458233004907 substrate-binding site [chemical binding]; other site 458233004908 metal-binding site [ion binding] 458233004909 ATP binding site [chemical binding]; other site 458233004910 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458233004911 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 458233004912 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 458233004913 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 458233004914 nudix motif; other site 458233004915 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 458233004916 o-succinylbenzoic acid (OSB) synthetase; Region: menC_lowGC/arch; TIGR01928 458233004917 metal binding site [ion binding]; metal-binding site 458233004918 substrate binding pocket [chemical binding]; other site 458233004919 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK03640 458233004920 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 458233004921 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 458233004922 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 458233004923 substrate binding site [chemical binding]; other site 458233004924 oxyanion hole (OAH) forming residues; other site 458233004925 trimer interface [polypeptide binding]; other site 458233004926 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 458233004927 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 458233004928 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 458233004929 dimer interface [polypeptide binding]; other site 458233004930 tetramer interface [polypeptide binding]; other site 458233004931 PYR/PP interface [polypeptide binding]; other site 458233004932 TPP binding site [chemical binding]; other site 458233004933 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 role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 458233004934 TPP-binding site; other site 458233004935 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 458233004936 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458233004937 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 458233004938 UbiA prenyltransferase family; Region: UbiA; cl00337 458233004939 NlpC/P60 family; Region: NLPC_P60; cl11438 458233004940 Phage lysis protein, holin; Region: Phage_holin; cl04675 458233004941 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 458233004942 Phage tail protein; Region: Sipho_tail; cl11462 458233004943 Phage tail protein; Region: Sipho_tail; cl11462 458233004944 Phage-related minor tail protein [Function unknown]; Region: COG5280 458233004945 Phage-related protein [Function unknown]; Region: COG5412 458233004946 Peptidase family M23; Region: Peptidase_M23; pfam01551 458233004947 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 458233004948 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458233004949 catalytic residue [active] 458233004950 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 458233004951 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 458233004952 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 458233004953 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 458233004954 oligomerization interface [polypeptide binding]; other site 458233004955 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 458233004956 Phage capsid family; Region: Phage_capsid; pfam05065 458233004957 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 458233004958 Phage portal protein; Region: Phage_portal; pfam04860 458233004959 Phage-related protein [Function unknown]; Region: COG4695; cl01923 458233004960 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 458233004961 Phage Terminase; Region: Terminase_1; pfam03354 458233004962 Phage terminase, small subunit; Region: Terminase_4; cl01525 458233004963 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...; Region: HNHc; cl00083 458233004964 YopX protein; Region: YopX; cl09859 458233004965 potential protein location (conserved hypothetical protein) that overlaps protein (hypothetical protein) 458233004966 potential protein location (hypothetical protein) that overlaps protein (conserved hypothetical protein) 458233004967 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 458233004968 dimer interface [polypeptide binding]; other site 458233004969 ssDNA binding site [nucleotide binding]; other site 458233004970 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233004971 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 458233004972 AntA/AntB antirepressor; Region: AntA; cl01430 458233004973 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 458233004974 Domain of unknown function (DUF771); Region: DUF771; cl09962 458233004975 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 458233004976 non-specific DNA binding site [nucleotide binding]; other site 458233004977 salt bridge; other site 458233004978 sequence-specific DNA binding site [nucleotide binding]; other site 458233004979 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 (...; Region: S24_LexA-like; cd06529 458233004980 Catalytic site [active] 458233004981 HIRAN domain; Region: HIRAN; cl07418 458233004982 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 458233004983 Phage integrase family; Region: Phage_integrase; pfam00589 458233004984 Int/Topo IB signature motif; other site 458233004985 ComK protein; Region: ComK; cl11560 458233004986 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 458233004987 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458233004988 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 458233004989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233004990 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 458233004991 ferrochelatase; Provisional; Region: PRK12435 458233004992 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 458233004993 C-terminal domain interface [polypeptide binding]; other site 458233004994 active site 458233004995 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 458233004996 active site 458233004997 N-terminal domain interface [polypeptide binding]; other site 458233004998 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...; Region: URO-D; cd00717 458233004999 substrate binding site [chemical binding]; other site 458233005000 active site 458233005001 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 458233005002 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 458233005003 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 458233005004 Walker A/P-loop; other site 458233005005 ATP binding site [chemical binding]; other site 458233005006 Q-loop/lid; other site 458233005007 ABC transporter signature motif; other site 458233005008 Walker B; other site 458233005009 D-loop; other site 458233005010 H-loop/switch region; other site 458233005011 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 458233005012 HIT family signature motif; other site 458233005013 catalytic residue [active] 458233005014 transcriptional regulator Hpr; Provisional; Region: PRK13777 458233005015 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233005016 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 458233005017 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 458233005018 PPIC-type PPIASE domain; Region: Rotamase; cl08278 458233005019 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 458233005020 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 458233005021 generic binding surface II; other site 458233005022 generic binding surface I; other site 458233005023 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233005024 Uncharacterized conserved protein [Function unknown]; Region: COG4717 458233005025 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458233005026 active site 458233005027 metal binding site [ion binding]; metal-binding site 458233005028 DNA binding site [nucleotide binding] 458233005029 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 458233005030 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; cl15259 458233005031 Protein of unknown function (DUF964); Region: DUF964; cl01483 458233005032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 458233005033 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233005034 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 458233005035 potential protein location (hypothetical protein) that overlaps protein (proton glutamate symporter ) 458233005036 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458233005037 Cation efflux family; Region: Cation_efflux; cl00316 458233005038 potential protein location (hypothetical protein) that overlaps protein (cation efflux protein ) 458233005039 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233005040 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 458233005041 active site 458233005042 phosphorylation site [posttranslational modification] 458233005043 intermolecular recognition site; other site 458233005044 dimerization interface [polypeptide binding]; other site 458233005045 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...; Region: LuxR_C_like; cd06170 458233005046 DNA binding residues [nucleotide binding] 458233005047 dimerization interface [polypeptide binding]; other site 458233005048 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 458233005049 GAF domain; Region: GAF; cl00853 458233005050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 458233005051 Histidine kinase; Region: HisKA_3; pfam07730 458233005052 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458233005053 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005054 Coenzyme A binding pocket [chemical binding]; other site 458233005055 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458233005056 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 458233005057 putative active site [active] 458233005058 catalytic triad [active] 458233005059 putative dimer interface [polypeptide binding]; other site 458233005060 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458233005061 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 458233005062 active site 458233005063 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 458233005064 dimer interface [polypeptide binding]; other site 458233005065 FMN binding site [chemical binding]; other site 458233005066 polyphosphate kinase; Provisional; Region: PRK05443 458233005067 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 458233005068 putative domain interface [polypeptide binding]; other site 458233005069 putative active site [active] 458233005070 catalytic site [active] 458233005071 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 458233005072 putative domain interface [polypeptide binding]; other site 458233005073 putative active site [active] 458233005074 catalytic site [active] 458233005075 exopolyphosphatase; Region: exo_poly_only; TIGR03706 458233005076 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 458233005077 fumarate hydratase; Reviewed; Region: fumC; PRK00485 458233005078 Class II fumarases; Region: Fumarase_classII; cd01362 458233005079 active site 458233005080 tetramer interface [polypeptide binding]; other site 458233005081 Nuclease-related domain; Region: NERD; pfam08378 458233005082 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 458233005083 active site 458233005084 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...; Region: NfsA_FRP; cd02146 458233005085 dimer interface [polypeptide binding]; other site 458233005086 FMN binding site [chemical binding]; other site 458233005087 NADPH bind site [chemical binding]; other site 458233005088 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458233005089 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 458233005090 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 458233005091 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458233005092 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP; Region: ABC_HisP_GlnQ_permeases; cd03262 458233005093 Walker A/P-loop; other site 458233005094 ATP binding site [chemical binding]; other site 458233005095 Q-loop/lid; other site 458233005096 ABC transporter signature motif; other site 458233005097 Walker B; other site 458233005098 D-loop; other site 458233005099 H-loop/switch region; other site 458233005100 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 458233005101 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...; Region: PBPb; cd00134 458233005102 substrate binding pocket [chemical binding]; other site 458233005103 membrane-bound complex binding site; other site 458233005104 hinge residues; other site 458233005105 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...; Region: TM_PBP2; cd06261 458233005106 dimer interface [polypeptide binding]; other site 458233005107 conserved gate region; other site 458233005108 putative PBP binding loops; other site 458233005109 ABC-ATPase subunit interface; other site 458233005110 hypothetical protein; Validated; Region: PRK07682 458233005111 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 458233005112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005113 homodimer interface [polypeptide binding]; other site 458233005114 catalytic residue [active] 458233005115 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233005116 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458233005117 oligomer interface [polypeptide binding]; other site 458233005118 active site residues [active] 458233005119 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 458233005120 H+ Antiporter protein; Region: 2A0121; TIGR00900 458233005121 putative substrate translocation pore; other site 458233005122 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458233005123 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 458233005124 non-specific DNA binding site [nucleotide binding]; other site 458233005125 salt bridge; other site 458233005126 sequence-specific DNA binding site [nucleotide binding]; other site 458233005127 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 458233005128 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458233005129 metal binding site 2 [ion binding]; metal-binding site 458233005130 putative DNA binding helix; other site 458233005131 metal binding site 1 [ion binding]; metal-binding site 458233005132 dimer interface [polypeptide binding]; other site 458233005133 structural Zn2+ binding site [ion binding]; other site 458233005134 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 458233005135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005136 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...; Region: PRX_BCP; cd03017 458233005137 catalytic triad [active] 458233005138 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 458233005139 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 458233005140 inhibitor-cofactor binding pocket; inhibition site 458233005141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005142 catalytic residue [active] 458233005143 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 458233005144 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 458233005145 active site 458233005146 DNA binding site [nucleotide binding] 458233005147 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233005148 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233005149 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 458233005150 Walker A/P-loop; other site 458233005151 ATP binding site [chemical binding]; other site 458233005152 Q-loop/lid; other site 458233005153 ABC transporter signature motif; other site 458233005154 Walker B; other site 458233005155 D-loop; other site 458233005156 H-loop/switch region; other site 458233005157 Protein of unknown function (DUF402); Region: DUF402; cl00979 458233005158 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 458233005159 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458233005160 minor groove reading motif; other site 458233005161 helix-hairpin-helix signature motif; other site 458233005162 substrate binding pocket [chemical binding]; other site 458233005163 active site 458233005164 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 458233005165 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 458233005166 DNA binding and oxoG recognition site [nucleotide binding] 458233005167 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 458233005168 ABC-2 type transporter; Region: ABC2_membrane; cl11417 458233005169 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 458233005170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233005171 Walker A/P-loop; other site 458233005172 ATP binding site [chemical binding]; other site 458233005173 Q-loop/lid; other site 458233005174 ABC transporter signature motif; other site 458233005175 Walker B; other site 458233005176 D-loop; other site 458233005177 H-loop/switch region; other site 458233005178 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 458233005179 RecX family; Region: RecX; cl00936 458233005180 Transglycosylase; Region: Transgly; cl07896 458233005181 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 458233005182 proposed catalytic triad [active] 458233005183 conserved cys residue [active] 458233005184 TRAM domain; Region: TRAM; cl01282 458233005185 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 458233005186 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 458233005187 S-adenosylmethionine binding site [chemical binding]; other site 458233005188 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; cl15259 458233005189 YfkB-like domain; Region: YfkB; pfam08756 458233005190 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...; Region: BFIT_BACH; cd03442 458233005191 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 458233005192 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 458233005193 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 458233005194 active site clefts [active] 458233005195 zinc binding site [ion binding]; other site 458233005196 dimer interface [polypeptide binding]; other site 458233005197 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458233005198 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 458233005199 active site 458233005200 phosphorylation site [posttranslational modification] 458233005201 intermolecular recognition site; other site 458233005202 dimerization interface [polypeptide binding]; other site 458233005203 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...; Region: LuxR_C_like; cd06170 458233005204 DNA binding residues [nucleotide binding] 458233005205 dimerization interface [polypeptide binding]; other site 458233005206 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458233005207 Histidine kinase; Region: HisKA_3; pfam07730 458233005208 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 458233005209 ATP binding site [chemical binding]; other site 458233005210 Mg2+ binding site [ion binding]; other site 458233005211 G-X-G motif; other site 458233005212 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 458233005213 methionine aminopeptidase; Reviewed; Region: PRK07281 458233005214 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 458233005215 active site 458233005216 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 458233005217 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 458233005218 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 458233005219 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 458233005220 catalytic triad [active] 458233005221 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233005222 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 458233005223 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 458233005224 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 458233005225 Ferritin-like domain; Region: Ferritin; pfam00210 458233005226 ferroxidase diiron center [ion binding]; other site 458233005227 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 458233005228 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 458233005229 G1 box; other site 458233005230 GTP/Mg2+ binding site [chemical binding]; other site 458233005231 Switch I region; other site 458233005232 G2 box; other site 458233005233 G3 box; other site 458233005234 Switch II region; other site 458233005235 G4 box; other site 458233005236 G5 box; other site 458233005237 Nucleoside recognition; Region: Gate; cl00486 458233005238 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 458233005239 Nucleoside recognition; Region: Gate; cl00486 458233005240 Uncharacterized membrane protein [Function unknown]; Region: COG3949 458233005241 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 458233005242 active site 458233005243 substrate binding site [chemical binding]; other site 458233005244 catalytic site [active] 458233005245 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; cl00038 458233005246 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 458233005247 active site 458233005248 DNA polymerase IV; Validated; Region: PRK02406 458233005249 DNA binding site [nucleotide binding] 458233005250 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 458233005251 TRAM domain; Region: TRAM; cl01282 458233005252 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 458233005253 S-adenosylmethionine binding site [chemical binding]; other site 458233005254 glucose-1-dehydrogenase; Provisional; Region: PRK08936 458233005255 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 458233005256 NAD binding site [chemical binding]; other site 458233005257 homodimer interface [polypeptide binding]; other site 458233005258 active site 458233005259 putative lipid kinase; Reviewed; Region: PRK13337 458233005260 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 458233005261 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 458233005262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233005263 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 458233005264 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 458233005265 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 458233005266 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 458233005267 GatB domain; Region: GatB_Yqey; cl11497 458233005268 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 458233005269 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 458233005270 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 458233005271 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458233005272 Sodium:solute symporter family; Region: SSF; cl00456 458233005273 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 458233005274 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 458233005275 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 458233005276 nucleotide binding pocket [chemical binding]; other site 458233005277 K-X-D-G motif; other site 458233005278 catalytic site [active] 458233005279 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 458233005280 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 458233005281 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 458233005282 Dimer interface [polypeptide binding]; other site 458233005283 BRCT sequence motif; other site 458233005284 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 458233005285 UvrD/REP helicase; Region: UvrD-helicase; cl14126 458233005286 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]; Region: COG1646 458233005287 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 sn-glycerol-1-...; Region: PcrB_like; cd02812 458233005288 substrate binding site [chemical binding]; other site 458233005289 putative active site [active] 458233005290 dimer interface [polypeptide binding]; other site 458233005291 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 458233005292 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 458233005293 adenylosuccinate lyase; Provisional; Region: PRK07492 458233005294 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 458233005295 tetramer interface [polypeptide binding]; other site 458233005296 active site 458233005297 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 458233005298 hypothetical protein; Provisional; Region: PRK04164 458233005299 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 458233005300 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 458233005301 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...; Region: NAD_synthase; cd00553 458233005302 homodimer interface [polypeptide binding]; other site 458233005303 NAD binding pocket [chemical binding]; other site 458233005304 ATP binding pocket [chemical binding]; other site 458233005305 Mg binding site [ion binding]; other site 458233005306 active-site loop [active] 458233005307 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 458233005308 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...; Region: NAPRTase_A; cd01570 458233005309 active site 458233005310 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 458233005311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458233005312 putative substrate translocation pore; other site 458233005313 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...; Region: NOS_oxygenase; cl00254 458233005314 active site 458233005315 dimer interface [polypeptide binding]; other site 458233005316 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 458233005317 Isochorismatase family; Region: Isochorismatase; pfam00857 458233005318 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 458233005319 catalytic triad [active] 458233005320 conserved cis-peptide bond; other site 458233005321 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 458233005322 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-...; Region: CBS_pair; cl09141 458233005323 DHHA2 domain; Region: DHHA2; pfam02833 458233005324 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 458233005325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005326 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 458233005327 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 458233005328 NAD(P) binding site [chemical binding]; other site 458233005329 catalytic residues [active] 458233005330 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458233005331 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 458233005332 putative active site [active] 458233005333 catalytic triad [active] 458233005334 putative dimer interface [polypeptide binding]; other site 458233005335 Nuclease-related domain; Region: NERD; pfam08378 458233005336 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 458233005337 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 458233005338 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...; Region: Orn_deC_like; cd00615 458233005339 homodimer interface [polypeptide binding]; other site 458233005340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005341 catalytic residue [active] 458233005342 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 458233005343 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 458233005344 spermidine synthase; Provisional; Region: PRK00811 458233005345 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 458233005346 S-adenosylmethionine binding site [chemical binding]; other site 458233005347 Arginase family; Region: Arginase; cl00306 458233005348 YolD-like protein; Region: YolD; pfam08863 458233005349 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458233005350 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 458233005351 active site 458233005352 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 458233005353 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...; Region: Nudix_Hydrolase; cl00447 458233005354 nudix motif; other site 458233005355 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458233005356 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 458233005357 active site 458233005358 FMN binding site [chemical binding]; other site 458233005359 substrate binding site [chemical binding]; other site 458233005360 homotetramer interface [polypeptide binding]; other site 458233005361 catalytic residue [active] 458233005362 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 458233005363 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 458233005364 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 458233005365 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 458233005366 active site 458233005367 Zn binding site [ion binding]; other site 458233005368 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 458233005369 non-specific DNA binding site [nucleotide binding]; other site 458233005370 salt bridge; other site 458233005371 sequence-specific DNA binding site [nucleotide binding]; other site 458233005372 hypothetical protein; Provisional; Region: PRK06753 458233005373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233005375 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458233005376 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 458233005377 metal-binding site [ion binding] 458233005378 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458233005379 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; cl11391 458233005380 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 458233005381 dimerization interface [polypeptide binding]; other site 458233005382 putative DNA binding site [nucleotide binding]; other site 458233005383 putative Zn2+ binding site [ion binding]; other site 458233005384 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 458233005385 active site 458233005386 metal binding site [ion binding]; metal-binding site 458233005387 Cation transport protein; Region: TrkH; cl10514 458233005388 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458233005389 Cation transport protein; Region: TrkH; cl10514 458233005390 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 458233005391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005392 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458233005393 Protein of unknown function (DUF805); Region: DUF805; cl01224 458233005394 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458233005395 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 458233005396 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 458233005397 Walker A/P-loop; other site 458233005398 ATP binding site [chemical binding]; other site 458233005399 Q-loop/lid; other site 458233005400 ABC transporter signature motif; other site 458233005401 Walker B; other site 458233005402 D-loop; other site 458233005403 H-loop/switch region; other site 458233005404 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233005405 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...; Region: metallo-dependent_hydrolases; cl00281 458233005406 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458233005407 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 458233005408 active site 458233005409 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 trans-...; Region: HisKA; cd00082 458233005410 dimer interface [polypeptide binding]; other site 458233005411 phosphorylation site [posttranslational modification] 458233005412 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 458233005413 ATP binding site [chemical binding]; other site 458233005414 Mg2+ binding site [ion binding]; other site 458233005415 G-X-G motif; other site 458233005416 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 458233005417 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458233005418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233005419 Walker A/P-loop; other site 458233005420 ATP binding site [chemical binding]; other site 458233005421 Q-loop/lid; other site 458233005422 ABC transporter signature motif; other site 458233005423 Walker B; other site 458233005424 D-loop; other site 458233005425 H-loop/switch region; other site 458233005426 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458233005427 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 458233005428 active site 458233005429 phosphorylation site [posttranslational modification] 458233005430 intermolecular recognition site; other site 458233005431 dimerization interface [polypeptide binding]; other site 458233005432 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...; Region: trans_reg_C; cd00383 458233005433 DNA binding site [nucleotide binding] 458233005434 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 458233005435 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458233005436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005437 Coenzyme A binding pocket [chemical binding]; other site 458233005438 LysE type translocator; Region: LysE; cl00565 458233005439 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 458233005440 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 458233005441 ring oligomerisation interface [polypeptide binding]; other site 458233005442 ATP/Mg binding site [chemical binding]; other site 458233005443 stacking interactions; other site 458233005444 hinge regions; other site 458233005445 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...; Region: cpn10; cd00320 458233005446 oligomerisation interface [polypeptide binding]; other site 458233005447 mobile loop; other site 458233005448 roof hairpin; other site 458233005449 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 458233005450 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 458233005451 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 458233005452 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 458233005453 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458233005454 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 458233005455 active site 458233005456 Zn binding site [ion binding]; other site 458233005457 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 458233005458 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 458233005459 putative metal binding site [ion binding]; other site 458233005460 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 458233005461 active site 458233005462 metal binding site [ion binding]; metal-binding site 458233005463 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 458233005464 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...; Region: SIS_RpiR; cd05013 458233005465 putative active site [active] 458233005466 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 458233005467 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 458233005468 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 458233005469 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 458233005470 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 458233005471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005472 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 458233005473 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233005474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233005475 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233005476 ABC transporter; Region: ABC_tran_2; pfam12848 458233005477 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 458233005478 ABC transporter; Region: ABC_tran_2; pfam12848 458233005479 UGMP family protein; Validated; Region: PRK09604 458233005480 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 458233005481 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458233005482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233005484 Coenzyme A binding pocket [chemical binding]; other site 458233005485 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 458233005486 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 458233005487 hypothetical protein; Provisional; Region: PRK04351 458233005488 SprT homologues; Region: SprT; cl01182 458233005489 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 458233005490 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 458233005491 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 458233005492 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...; Region: S1_Tex; cd05685 458233005493 RNA binding site [nucleotide binding]; other site 458233005494 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 458233005495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458233005496 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458233005497 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...; Region: Sigma70_r4; cd06171 458233005498 DNA binding residues [nucleotide binding] 458233005499 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 458233005500 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 458233005501 anti sigma factor interaction site; other site 458233005502 regulatory phosphorylation site [posttranslational modification]; other site 458233005503 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 458233005504 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 458233005505 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 458233005506 PemK-like protein; Region: PemK; cl00995 458233005507 alanine racemase; Reviewed; Region: alr; PRK00053 458233005508 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 458233005509 active site 458233005510 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458233005511 dimer interface [polypeptide binding]; other site 458233005512 substrate binding site [chemical binding]; other site 458233005513 catalytic residues [active] 458233005514 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 458233005515 Bacterial membrane flanked domain; Region: DUF304; cl01348 458233005516 Bacterial membrane flanked domain; Region: DUF304; cl01348 458233005517 Bacterial membrane flanked domain; Region: DUF304; cl01348 458233005518 Bacterial membrane flanked domain; Region: DUF304; cl01348 458233005519 Bacterial membrane flanked domain; Region: DUF304; cl01348 458233005520 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458233005521 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 458233005522 ATP binding site [chemical binding]; other site 458233005523 Mg++ binding site [ion binding]; other site 458233005524 motif III; other site 458233005525 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 458233005526 nucleotide binding region [chemical binding]; other site 458233005527 ATP-binding site [chemical binding]; other site 458233005528 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 458233005529 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458233005530 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458233005531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458233005532 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 458233005533 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 458233005534 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233005535 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458233005536 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 458233005537 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 458233005538 putative active site [active] 458233005539 catalytic site [active] 458233005540 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 458233005541 putative active site [active] 458233005542 catalytic site [active] 458233005543 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 458233005544 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 458233005545 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 458233005546 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- (beta-...; Region: TMP_TenI; cd00564 458233005547 thiamine phosphate binding site [chemical binding]; other site 458233005548 active site 458233005549 pyrophosphate binding site [ion binding]; other site 458233005550 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 458233005551 substrate binding site [chemical binding]; other site 458233005552 multimerization interface [polypeptide binding]; other site 458233005553 ATP binding site [chemical binding]; other site 458233005554 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 458233005555 dimer interface [polypeptide binding]; other site 458233005556 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 458233005557 substrate binding site [chemical binding]; other site 458233005558 ATP binding site [chemical binding]; other site 458233005559 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 458233005560 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005561 putative peptidoglycan binding site; other site 458233005562 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005563 putative peptidoglycan binding site; other site 458233005564 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 458233005565 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005566 putative peptidoglycan binding site; other site 458233005567 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005568 putative peptidoglycan binding site; other site 458233005569 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases...; Region: lysozyme_like; cl00222 458233005570 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 458233005571 dimer interface [polypeptide binding]; other site 458233005572 ssDNA binding site [nucleotide binding]; other site 458233005573 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233005574 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 458233005575 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 458233005576 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 458233005577 hinge; other site 458233005578 active site 458233005579 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 458233005580 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 458233005581 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 458233005582 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 458233005583 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 458233005584 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 458233005585 alpha subunit interaction interface [polypeptide binding]; other site 458233005586 Walker A motif; other site 458233005587 ATP binding site [chemical binding]; other site 458233005588 Walker B motif; other site 458233005589 inhibitor binding site; inhibition site 458233005590 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458233005591 ATP synthase; Region: ATP-synt; cl00365 458233005592 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 458233005593 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 458233005594 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 458233005595 beta subunit interaction interface [polypeptide binding]; other site 458233005596 Walker A motif; other site 458233005597 ATP binding site [chemical binding]; other site 458233005598 Walker B motif; other site 458233005599 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458233005600 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 458233005601 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 458233005602 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 458233005603 ATP synthase A chain; Region: ATP-synt_A; cl00413 458233005604 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 458233005605 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 458233005606 active site 458233005607 homodimer interface [polypeptide binding]; other site 458233005608 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233005609 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 458233005610 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...; Region: SHMT; cd00378 458233005611 dimer interface [polypeptide binding]; other site 458233005612 glycine-pyridoxal phosphate binding site [chemical binding]; other site 458233005613 active site 458233005614 folate binding site [chemical binding]; other site 458233005615 Protein of unknown function (DUF436); Region: DUF436; cl01860 458233005616 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 458233005617 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458233005618 Active site [active] 458233005619 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 458233005620 SUA5 domain; Region: SUA5; pfam03481 458233005621 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 458233005622 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 458233005623 S-adenosylmethionine binding site [chemical binding]; other site 458233005624 peptide chain release factor 1; Validated; Region: prfA; PRK00591 458233005625 RF-1 domain; Region: RF-1; cl02875 458233005626 RF-1 domain; Region: RF-1; cl02875 458233005627 Thymidine kinase; Region: TK; cl00631 458233005628 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 458233005629 transcription termination factor Rho; Provisional; Region: rho; PRK09376 458233005630 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 458233005631 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...; Region: Rho_CSD; cd04459 458233005632 RNA binding site [nucleotide binding]; other site 458233005633 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233005634 Walker A motif; other site 458233005635 ATP binding site [chemical binding]; other site 458233005636 Walker B motif; other site 458233005637 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 458233005638 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 458233005639 putative active site [active] 458233005640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233005641 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 458233005642 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 458233005643 hinge; other site 458233005644 active site 458233005645 hypothetical protein; Provisional; Region: PRK08185 458233005646 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...; Region: TBP_aldolase_IIB; cd00947 458233005647 intersubunit interface [polypeptide binding]; other site 458233005648 active site 458233005649 zinc binding site [ion binding]; other site 458233005650 Na+ binding site [ion binding]; other site 458233005651 Response regulator receiver domain; Region: Response_reg; pfam00072 458233005652 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 458233005653 active site 458233005654 phosphorylation site [posttranslational modification] 458233005655 intermolecular recognition site; other site 458233005656 dimerization interface [polypeptide binding]; other site 458233005657 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 458233005658 CTP synthetase; Validated; Region: pyrG; PRK05380 458233005659 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...; Region: CTGs; cd03113 458233005660 Catalytic site [active] 458233005661 Active site [active] 458233005662 UTP binding site [chemical binding]; other site 458233005663 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 458233005664 active site 458233005665 putative oxyanion hole; other site 458233005666 catalytic triad [active] 458233005667 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 458233005668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 458233005669 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 458233005670 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 458233005671 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233005672 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 458233005673 metal binding site [ion binding]; metal-binding site 458233005674 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 458233005675 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233005676 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458233005677 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 458233005678 dimer interface [polypeptide binding]; other site 458233005679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005680 catalytic residue [active] 458233005681 cystathionine beta-lyase; Provisional; Region: PRK07671 458233005682 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 458233005683 homodimer interface [polypeptide binding]; other site 458233005684 substrate-cofactor binding pocket; other site 458233005685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005686 catalytic residue [active] 458233005687 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 458233005688 Sulfatase; Region: Sulfatase; cl10460 458233005689 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 458233005690 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 458233005691 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458233005692 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458233005693 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 458233005694 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 458233005695 intersubunit interface [polypeptide binding]; other site 458233005696 active site 458233005697 catalytic residue [active] 458233005698 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 458233005699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233005700 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 458233005701 Ferritin-like domain; Region: Ferritin; pfam00210 458233005702 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 458233005703 dimerization interface [polypeptide binding]; other site 458233005704 DPS ferroxidase diiron center [ion binding]; other site 458233005705 ion pore; other site 458233005706 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 458233005707 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 458233005708 D-galactonate transporter; Region: 2A0114; TIGR00893 458233005709 putative substrate translocation pore; other site 458233005710 potential frameshift: common BLAST hit: gi|67078218|ref|YP_245838.1| zinc-dependent dehydrogenase 458233005711 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 458233005712 NAD(P) binding site [chemical binding]; other site 458233005713 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 458233005714 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 458233005715 Ligand Binding Site [chemical binding]; other site 458233005716 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 458233005717 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458233005718 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 458233005719 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 458233005720 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; cl09110 458233005721 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; cl09110 458233005722 EVE domain; Region: EVE; cl00728 458233005723 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 458233005724 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 458233005725 Catalytic site; other site 458233005726 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005727 putative peptidoglycan binding site; other site 458233005728 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005729 putative peptidoglycan binding site; other site 458233005730 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458233005731 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 458233005732 putative peptidoglycan binding site; other site 458233005733 NlpC/P60 family; Region: NLPC_P60; cl11438 458233005734 Haemolysin-III related; Region: HlyIII; cl03831 458233005735 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 458233005736 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 458233005737 Class III ribonucleotide reductase; Region: RNR_III; cd01675 458233005738 effector binding site; other site 458233005739 active site 458233005740 Zn binding site [ion binding]; other site 458233005741 glycine loop; other site 458233005742 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; cl15259 458233005743 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 458233005744 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 458233005745 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 458233005746 S-adenosylmethionine binding site [chemical binding]; other site 458233005747 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458233005748 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; cl11391 458233005749 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 458233005750 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...; Region: ADPRase_NUDT5; cd03424 458233005751 dimer interface [polypeptide binding]; other site 458233005752 ADP-ribose binding site [chemical binding]; other site 458233005753 active site 458233005754 nudix motif; other site 458233005755 metal binding site [ion binding]; metal-binding site 458233005756 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233005757 ABC-ATPase subunit interface; other site 458233005758 dimer interface [polypeptide binding]; other site 458233005759 putative PBP binding regions; other site 458233005760 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 458233005761 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458233005762 putative binding site residues; other site 458233005763 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 458233005764 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 458233005765 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 458233005766 active site 458233005767 HIGH motif; other site 458233005768 KMSK motif region; other site 458233005769 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 458233005770 tRNA binding surface [nucleotide binding]; other site 458233005771 anticodon binding site; other site 458233005772 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 458233005773 YwhD family; Region: YwhD; pfam08741 458233005774 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 458233005775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458233005776 Zn2+ binding site [ion binding]; other site 458233005777 Mg2+ binding site [ion binding]; other site 458233005778 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458233005779 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233005780 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233005781 Coenzyme A binding pocket [chemical binding]; other site 458233005782 FemAB family; Region: FemAB; cl11444 458233005783 hypothetical protein; Provisional; Region: PRK06849 458233005784 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 458233005785 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 458233005786 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 458233005787 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 458233005788 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 458233005789 Chlorite dismutase; Region: Chlor_dismutase; cl01280 458233005790 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 458233005791 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458233005792 putative ligand binding residues [chemical binding]; other site 458233005793 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 458233005794 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458233005795 Walker A/P-loop; other site 458233005796 ATP binding site [chemical binding]; other site 458233005797 Q-loop/lid; other site 458233005798 ABC transporter signature motif; other site 458233005799 Walker B; other site 458233005800 D-loop; other site 458233005801 H-loop/switch region; other site 458233005802 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 458233005803 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233005804 ABC-ATPase subunit interface; other site 458233005805 dimer interface [polypeptide binding]; other site 458233005806 putative PBP binding regions; other site 458233005807 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...; Region: TM_ABC_iron-siderophores_like; cd06550 458233005808 ABC-ATPase subunit interface; other site 458233005809 dimer interface [polypeptide binding]; other site 458233005810 putative PBP binding regions; other site 458233005811 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233005812 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 458233005813 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 458233005814 Protein of unknown function (DUF423); Region: DUF423; cl01008 458233005815 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 458233005816 ligand binding site [chemical binding]; other site 458233005817 active site 458233005818 UGI interface [polypeptide binding]; other site 458233005819 catalytic site [active] 458233005820 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 458233005821 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 458233005822 dimer interface [polypeptide binding]; other site 458233005823 substrate binding site [chemical binding]; other site 458233005824 ATP binding site [chemical binding]; other site 458233005825 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 458233005826 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 458233005827 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 458233005828 maltose O-acetyltransferase; Provisional; Region: PRK10092 458233005829 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 458233005830 active site 458233005831 substrate binding site [chemical binding]; other site 458233005832 trimer interface [polypeptide binding]; other site 458233005833 CoA binding site [chemical binding]; other site 458233005834 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 458233005835 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 458233005836 active site 458233005837 motif I; other site 458233005838 motif II; other site 458233005839 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; cl11391 458233005840 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 458233005841 nucleoside/Zn binding site; other site 458233005842 dimer interface [polypeptide binding]; other site 458233005843 catalytic motif [active] 458233005844 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 458233005845 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...; Region: dNK; cd01673 458233005846 Substrate-binding site [chemical binding]; other site 458233005847 Substrate specificity [chemical binding]; other site 458233005848 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 458233005849 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...; Region: dNK; cd01673 458233005850 Substrate-binding site [chemical binding]; other site 458233005851 Substrate specificity [chemical binding]; other site 458233005852 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 458233005853 motif II; other site 458233005854 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233005855 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 458233005856 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 alpha-...; Region: BCAT_beta_family; cd01557 458233005857 homodimer interface [polypeptide binding]; other site 458233005858 substrate-cofactor binding pocket; other site 458233005859 catalytic residue [active] 458233005860 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458233005861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233005862 NAD(P) binding site [chemical binding]; other site 458233005863 active site 458233005864 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 458233005865 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), 8-amino-7-...; Region: KBL_like; cd06454 458233005866 substrate-cofactor binding pocket; other site 458233005867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233005868 catalytic residue [active] 458233005869 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233005870 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233005871 metal binding site [ion binding]; metal-binding site 458233005872 dimer interface [polypeptide binding]; other site 458233005873 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233005874 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233005875 metal binding site [ion binding]; metal-binding site 458233005876 dimer interface [polypeptide binding]; other site 458233005877 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458233005878 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 458233005879 metal binding site [ion binding]; metal-binding site 458233005880 dimer interface [polypeptide binding]; other site 458233005881 elongation factor Tu; Reviewed; Region: PRK00049 458233005882 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 458233005883 G1 box; other site 458233005884 GEF interaction site [polypeptide binding]; other site 458233005885 GTP/Mg2+ binding site [chemical binding]; other site 458233005886 Switch I region; other site 458233005887 G2 box; other site 458233005888 G3 box; other site 458233005889 Switch II region; other site 458233005890 G4 box; other site 458233005891 G5 box; other site 458233005892 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 458233005893 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 458233005894 Antibiotic Binding Site [chemical binding]; other site 458233005895 elongation factor G; Reviewed; Region: PRK00007 458233005896 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 458233005897 G1 box; other site 458233005898 putative GEF interaction site [polypeptide binding]; other site 458233005899 GTP/Mg2+ binding site [chemical binding]; other site 458233005900 Switch I region; other site 458233005901 G2 box; other site 458233005902 G3 box; other site 458233005903 Switch II region; other site 458233005904 G4 box; other site 458233005905 G5 box; other site 458233005906 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...; Region: EFG_mtEFG_II; cd04088 458233005907 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...; Region: EFG_mtEFG1_IV; cd01434 458233005908 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...; Region: EFG_mtEFG_C; cd03713 458233005909 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 458233005910 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 458233005911 S17 interaction site [polypeptide binding]; other site 458233005912 S8 interaction site; other site 458233005913 16S rRNA interaction site [nucleotide binding]; other site 458233005914 streptomycin interaction site [chemical binding]; other site 458233005915 23S rRNA interaction site [nucleotide binding]; other site 458233005916 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 458233005917 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 458233005918 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 458233005919 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 458233005920 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 458233005921 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 458233005922 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 458233005923 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 458233005924 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 458233005925 G-loop; other site 458233005926 DNA binding site [nucleotide binding] 458233005927 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 458233005928 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 458233005929 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 458233005930 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 458233005931 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 458233005932 RPB1 interaction site [polypeptide binding]; other site 458233005933 RPB11 interaction site [polypeptide binding]; other site 458233005934 RPB12 interaction site [polypeptide binding]; other site 458233005935 RPB10 interaction site [polypeptide binding]; other site 458233005936 RPB11 interaction site [polypeptide binding]; other site 458233005937 RPB3 interaction site [polypeptide binding]; other site 458233005938 RPB12 interaction site [polypeptide binding]; other site 458233005939 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 458233005940 S-adenosylmethionine binding site [chemical binding]; other site 458233005941 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 458233005942 core dimer interface [polypeptide binding]; other site 458233005943 peripheral dimer interface [polypeptide binding]; other site 458233005944 L10 interface [polypeptide binding]; other site 458233005945 L11 interface [polypeptide binding]; other site 458233005946 putative EF-Tu interaction site [polypeptide binding]; other site 458233005947 putative EF-G interaction site [polypeptide binding]; other site 458233005948 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...; Region: Ribosomal_L10; cd05797 458233005949 23S rRNA interface [nucleotide binding]; other site 458233005950 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 458233005951 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...; Region: Ribosomal_L1; cd00403 458233005952 mRNA/rRNA interface [nucleotide binding]; other site 458233005953 Ribosomal protein L11/L12; Region: RL11; smart00649 458233005954 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 458233005955 putative thiostrepton binding site; other site 458233005956 23S rRNA interface [nucleotide binding]; other site 458233005957 L7/L12 interface [polypeptide binding]; other site 458233005958 L25 interface [polypeptide binding]; other site 458233005959 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 458233005960 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 458233005961 putative homodimer interface [polypeptide binding]; other site 458233005962 KOW motif; Region: KOW; cl00354 458233005963 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 458233005964 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 458233005965 YacP-like NYN domain; Region: NYN_YacP; cl01491 458233005966 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 458233005967 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 458233005968 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 458233005969 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 post-...; Region: RIBOc; cd00593 458233005970 dimerization interface [polypeptide binding]; other site 458233005971 active site 458233005972 metal binding site [ion binding]; metal-binding site 458233005973 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 458233005974 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458233005975 active site 458233005976 HIGH motif; other site 458233005977 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458233005978 KMSKS motif; other site 458233005979 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 458233005980 tRNA binding surface [nucleotide binding]; other site 458233005981 anticodon binding site; other site 458233005982 serine O-acetyltransferase; Region: cysE; TIGR01172 458233005983 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 458233005984 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 L-...; Region: LbH_SAT; cd03354 458233005985 trimer interface [polypeptide binding]; other site 458233005986 active site 458233005987 substrate binding site [chemical binding]; other site 458233005988 CoA binding site [chemical binding]; other site 458233005989 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 458233005990 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458233005991 active site 458233005992 HIGH motif; other site 458233005993 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458233005994 active site 458233005995 KMSKS motif; other site 458233005996 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...; Region: MECDP_synthase; cd00554 458233005997 homotrimer interaction site [polypeptide binding]; other site 458233005998 zinc binding site [ion binding]; other site 458233005999 CDP-binding sites; other site 458233006000 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 458233006001 substrate binding site [chemical binding]; other site 458233006002 dimer interface [polypeptide binding]; other site 458233006003 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 458233006004 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 458233006005 putative active site [active] 458233006006 DNA repair protein RadA; Provisional; Region: PRK11823 458233006007 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 458233006008 Walker A motif/ATP binding site; other site 458233006009 ATP binding site [chemical binding]; other site 458233006010 Walker B motif; other site 458233006011 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 458233006012 Clp protease ATP binding subunit; Region: clpC; CHL00095 458233006013 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...; Region: AAA; cd00009 458233006014 Walker A motif; other site 458233006015 ATP binding site [chemical binding]; other site 458233006016 Walker B motif; other site 458233006017 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 458233006018 Clp amino terminal domain; Region: Clp_N; pfam02861 458233006019 Clp amino terminal domain; Region: Clp_N; pfam02861 458233006020 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...; Region: AAA; cd00009 458233006021 Walker A motif; other site 458233006022 ATP binding site [chemical binding]; other site 458233006023 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 458233006024 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 458233006025 ADP binding site [chemical binding]; other site 458233006026 phosphagen binding site; other site 458233006027 substrate specificity loop; other site 458233006028 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 458233006029 UvrB/uvrC motif; Region: UVR; pfam02151 458233006030 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 458233006031 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458233006032 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458233006033 Nucleoside recognition; Region: Gate; cl00486 458233006034 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458233006035 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 458233006036 dimer interface [polypeptide binding]; other site 458233006037 FMN binding site [chemical binding]; other site 458233006038 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 458233006039 predicted active site [active] 458233006040 catalytic triad [active] 458233006041 pyridoxal biosynthesis lyase PdxS; Provisional; Region: PRK04180 458233006042 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 458233006043 phosphate binding site [ion binding]; other site 458233006044 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 458233006045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233006046 DNA-binding site [nucleotide binding]; DNA binding site 458233006047 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 458233006048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006049 homodimer interface [polypeptide binding]; other site 458233006050 catalytic residue [active] 458233006051 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 458233006052 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-...; Region: LysRS_N; cd04322 458233006053 dimer interface [polypeptide binding]; other site 458233006054 putative anticodon binding site; other site 458233006055 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 458233006056 motif 1; other site 458233006057 active site 458233006058 motif 2; other site 458233006059 motif 3; other site 458233006060 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 458233006061 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...; Region: DUS_like_FMN; cd02801 458233006062 FMN binding site [chemical binding]; other site 458233006063 active site 458233006064 catalytic residues [active] 458233006065 substrate binding site [chemical binding]; other site 458233006066 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 458233006067 catalytic center binding site [active] 458233006068 ATP binding site [chemical binding]; other site 458233006069 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...; Region: DHNA_DHNTPE; cd00534 458233006070 homooctamer interface [polypeptide binding]; other site 458233006071 active site 458233006072 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 458233006073 dihydropteroate synthase; Region: DHPS; TIGR01496 458233006074 substrate binding pocket [chemical binding]; other site 458233006075 dimer interface [polypeptide binding]; other site 458233006076 inhibitor binding site; inhibition site 458233006077 cysteine synthases; Region: cysKM; TIGR01136 458233006078 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 458233006079 dimer interface [polypeptide binding]; other site 458233006080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458233006081 catalytic residue [active] 458233006082 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 458233006083 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 458233006084 dimerization interface [polypeptide binding]; other site 458233006085 domain crossover interface; other site 458233006086 redox-dependent activation switch; other site 458233006087 FtsH Extracellular; Region: FtsH_ext; pfam06480 458233006088 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 458233006089 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...; Region: AAA; cd00009 458233006090 Walker A motif; other site 458233006091 ATP binding site [chemical binding]; other site 458233006092 Walker B motif; other site 458233006093 arginine finger; other site 458233006094 Peptidase family M41; Region: Peptidase_M41; pfam01434 458233006095 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233006096 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 458233006097 Ligand Binding Site [chemical binding]; other site 458233006098 B3/4 domain; Region: B3_4; cl11458 458233006099 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 458233006100 RNA binding site [nucleotide binding]; other site 458233006101 Septum formation initiator; Region: DivIC; cl11433 458233006102 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 458233006103 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 458233006104 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458233006105 MatE; Region: MatE; cl10513 458233006106 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 458233006107 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 458233006108 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 458233006109 ATP binding site [chemical binding]; other site 458233006110 putative Mg++ binding site [ion binding]; other site 458233006111 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 458233006112 nucleotide binding region [chemical binding]; other site 458233006113 ATP-binding site [chemical binding]; other site 458233006114 TRCF domain; Region: TRCF; cl04088 458233006115 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 458233006116 putative active site [active] 458233006117 catalytic residue [active] 458233006118 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 458233006119 5S rRNA interface [nucleotide binding]; other site 458233006120 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 458233006121 CTC domain interface [polypeptide binding]; other site 458233006122 L16 interface [polypeptide binding]; other site 458233006123 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 458233006124 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233006125 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 458233006126 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 458233006127 Substrate binding site [chemical binding]; other site 458233006128 Mg++ binding site [ion binding]; other site 458233006129 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 458233006130 active site 458233006131 substrate binding site [chemical binding]; other site 458233006132 CoA binding site [chemical binding]; other site 458233006133 SpoVG; Region: SpoVG; cl00915 458233006134 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 458233006135 homotrimer interaction site [polypeptide binding]; other site 458233006136 putative active site [active] 458233006137 potential frameshift: common BLAST hit: gi|70727514|ref|YP_254430.1| purine operon repressor 458233006138 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233006139 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 458233006140 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 458233006141 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 458233006142 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458233006143 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233006144 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 458233006145 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...; Region: TOPRIM_RNase_M5_like; cd01027 458233006146 putative active site [active] 458233006147 putative metal binding site [ion binding]; other site 458233006148 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 458233006149 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458233006150 active site 458233006151 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 458233006152 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 458233006153 active site 458233006154 HIGH motif; other site 458233006155 KMSKS motif; other site 458233006156 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 458233006157 tRNA binding surface [nucleotide binding]; other site 458233006158 anticodon binding site; other site 458233006159 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 458233006160 dimer interface [polypeptide binding]; other site 458233006161 putative tRNA-binding site [nucleotide binding]; other site 458233006162 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 458233006163 Predicted methyltransferases [General function prediction only]; Region: COG0313 458233006164 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 458233006165 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 458233006166 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233006167 Protein of unknown function (DUF972); Region: DUF972; cl01853 458233006168 PSP1 C-terminal conserved region; Region: PSP1; cl00770 458233006169 DNA polymerase III subunit delta'; Validated; Region: PRK08058 458233006170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 458233006171 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 458233006172 thymidylate kinase; Validated; Region: tmk; PRK00698 458233006173 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...; Region: TMPK; cd01672 458233006174 TMP-binding site; other site 458233006175 ATP-binding site [chemical binding]; other site 458233006176 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 458233006177 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 458233006178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458233006179 catalytic residue [active] 458233006180 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 458233006181 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 458233006182 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 458233006183 active site 458233006184 nucleophile elbow; other site 458233006185 recombination protein RecR; Reviewed; Region: recR; PRK00076 458233006186 RecR protein; Region: RecR; pfam02132 458233006187 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 458233006188 putative active site [active] 458233006189 putative metal-binding site [ion binding]; other site 458233006190 tetramer interface [polypeptide binding]; other site 458233006191 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 458233006192 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 458233006193 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...; Region: AAA; cd00009 458233006194 Walker A motif; other site 458233006195 ATP binding site [chemical binding]; other site 458233006196 Walker B motif; other site 458233006197 arginine finger; other site 458233006198 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 458233006199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458233006200 DNA-binding site [nucleotide binding]; DNA binding site 458233006201 UTRA domain; Region: UTRA; cl01230 458233006202 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 458233006203 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 458233006204 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 458233006205 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...; Region: PTS_IIB_glc; cd00212 458233006206 active site turn [active] 458233006207 phosphorylation site [posttranslational modification] 458233006208 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 458233006209 GMP synthase; Reviewed; Region: guaA; PRK00074 458233006210 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 458233006211 AMP/PPi binding site [chemical binding]; other site 458233006212 candidate oxyanion hole; other site 458233006213 catalytic triad [active] 458233006214 potential glutamine specificity residues [chemical binding]; other site 458233006215 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 458233006216 ATP Binding subdomain [chemical binding]; other site 458233006217 Ligand Binding sites [chemical binding]; other site 458233006218 Dimerization subdomain; other site 458233006219 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 458233006220 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 458233006221 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 458233006222 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 458233006223 active site 458233006224 Permease family; Region: Xan_ur_permease; pfam00860 458233006225 Sulfate transporter family; Region: Sulfate_transp; cl00967 458233006226 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 458233006227 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 458233006228 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458233006229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458233006230 Coenzyme A binding pocket [chemical binding]; other site 458233006231 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 458233006232 dimer interface [polypeptide binding]; other site 458233006233 ssDNA binding site [nucleotide binding]; other site 458233006234 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458233006235 GTP-binding protein YchF; Reviewed; Region: PRK09601 458233006236 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 458233006237 G1 box; other site 458233006238 GTP/Mg2+ binding site [chemical binding]; other site 458233006239 Switch I region; other site 458233006240 G2 box; other site 458233006241 Switch II region; other site 458233006242 G3 box; other site 458233006243 G4 box; other site 458233006244 G5 box; other site 458233006245 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 458233006246 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458233006247 ParB-like partition proteins; Region: parB_part; TIGR00180 458233006248 ParB-like nuclease domain; Region: ParBc; cl02129 458233006249 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 458233006250 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458233006251 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 458233006252 ParB-like partition proteins; Region: parB_part; TIGR00180 458233006253 ParB-like nuclease domain; Region: ParBc; cl02129 458233006254 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 458233006255 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 458233006256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458233006257 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 458233006258 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 458233006259 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 458233006260 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 458233006261 G1 box; other site 458233006262 GTP/Mg2+ binding site [chemical binding]; other site 458233006263 Switch I region; other site 458233006264 G2 box; other site 458233006265 Switch II region; other site 458233006266 G3 box; other site 458233006267 G4 box; other site 458233006268 G5 box; other site 458233006269 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 458233006270 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 458233006271 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 458233006272 G-X-X-G motif; other site 458233006273 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 458233006274 RxxxH motif; other site 458233006275 Ribonuclease P; Region: Ribonuclease_P; cl00457 458233006276 Replication initiation factor; Region: Rep_trans; pfam02486 458233006277 Domain of unknown function (DUF334); Region: DUF334; pfam03904 458233006278 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 458233006279 Initiator Replication protein; Region: Rep_3; cl03080 458233006280 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 458233006281 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 458233006282 Initiator Replication protein; Region: Rep_3; cl03080 458233006283 Replication protein; Region: Rep_1; cl02412