-- dump date 20120504_154106 -- class Genbank::misc_feature -- table misc_feature_note -- id note 709991000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 709991000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 709991000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991000004 Walker A motif; other site 709991000005 ATP binding site [chemical binding]; other site 709991000006 Walker B motif; other site 709991000007 arginine finger; other site 709991000008 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 709991000009 DnaA box-binding interface [nucleotide binding]; other site 709991000010 Uncharacterized conserved protein [Function unknown]; Region: COG1739 709991000011 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 709991000012 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 709991000013 active site 709991000014 Int/Topo IB signature motif; other site 709991000015 DNA binding site [nucleotide binding] 709991000016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000018 AAA domain; Region: AAA_21; pfam13304 709991000019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000020 ABC transporter signature motif; other site 709991000021 Walker B; other site 709991000022 D-loop; other site 709991000023 H-loop/switch region; other site 709991000024 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 709991000025 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 709991000026 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 709991000027 Integrase core domain; Region: rve; cl01316 709991000028 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 709991000029 Immunity protein Imm5; Region: Imm5; pfam14423 709991000030 Immunity protein Imm5; Region: Imm5; pfam14423 709991000031 Helix-turn-helix domains; Region: HTH; cl00088 709991000032 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; cl15754 709991000033 Protein of unknown function (DUF418); Region: DUF418; cl12135 709991000034 maltose O-acetyltransferase; Provisional; Region: PRK10092 709991000035 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 709991000036 active site 709991000037 substrate binding site [chemical binding]; other site 709991000038 trimer interface [polypeptide binding]; other site 709991000039 CoA binding site [chemical binding]; other site 709991000040 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 709991000041 putative deacylase active site [active] 709991000042 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000043 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000044 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991000045 FecR protein; Region: FecR; pfam04773 709991000046 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000047 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000048 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000049 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000050 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991000051 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 709991000052 catalytic residues [active] 709991000053 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 709991000054 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 709991000055 Ca binding site [ion binding]; other site 709991000056 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 709991000057 galactokinase; Provisional; Region: PRK05322 709991000058 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 709991000059 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 709991000060 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 709991000061 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 709991000062 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 709991000063 active site 709991000064 catalytic residues [active] 709991000065 putative transporter; Provisional; Region: PRK10484 709991000066 Sodium:solute symporter family; Region: SSF; cl00456 709991000067 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 709991000068 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 709991000069 intersubunit interface [polypeptide binding]; other site 709991000070 active site 709991000071 Zn2+ binding site [ion binding]; other site 709991000072 L-arabinose isomerase; Provisional; Region: PRK02929 709991000073 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 709991000074 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 709991000075 trimer interface [polypeptide binding]; other site 709991000076 putative substrate binding site [chemical binding]; other site 709991000077 putative metal binding site [ion binding]; other site 709991000078 ribulokinase; Provisional; Region: PRK04123 709991000079 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 709991000080 putative N- and C-terminal domain interface [polypeptide binding]; other site 709991000081 putative active site [active] 709991000082 putative MgATP binding site [chemical binding]; other site 709991000083 catalytic site [active] 709991000084 metal binding site [ion binding]; metal-binding site 709991000085 carbohydrate binding site [chemical binding]; other site 709991000086 homodimer interface [polypeptide binding]; other site 709991000087 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991000088 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991000089 ligand binding site [chemical binding]; other site 709991000090 Transposase domain (DUF772); Region: DUF772; cl15789 709991000091 Transposase domain (DUF772); Region: DUF772; cl15789 709991000092 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 709991000093 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 709991000094 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 709991000095 FeS/SAM binding site; other site 709991000096 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 709991000097 nudix motif; other site 709991000098 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 709991000099 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 709991000100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000101 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 709991000102 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 709991000103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000104 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 709991000105 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 709991000106 Ligand Binding Site [chemical binding]; other site 709991000107 B3/4 domain; Region: B3_4; cl11458 709991000108 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 709991000109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000110 Walker A/P-loop; other site 709991000111 ATP binding site [chemical binding]; other site 709991000112 Q-loop/lid; other site 709991000113 ABC transporter signature motif; other site 709991000114 Walker B; other site 709991000115 D-loop; other site 709991000116 H-loop/switch region; other site 709991000117 ABC transporter; Region: ABC_tran_2; pfam12848 709991000118 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991000119 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 709991000120 A new structural DNA glycosylase; Region: AlkD_like; cd06561 709991000121 active site 709991000122 Aerotolerance regulator N-terminal; Region: BatA; cl06567 709991000123 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 709991000124 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 709991000125 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 709991000126 P-loop; other site 709991000127 Magnesium ion binding site [ion binding]; other site 709991000128 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 709991000129 Magnesium ion binding site [ion binding]; other site 709991000130 ParB-like partition proteins; Region: parB_part; TIGR00180 709991000131 ParB-like nuclease domain; Region: ParBc; cl02129 709991000132 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 709991000133 N-acetyl-D-glucosamine binding site [chemical binding]; other site 709991000134 catalytic residue [active] 709991000135 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 709991000136 putative peptidoglycan binding site; other site 709991000137 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 709991000138 putative peptidoglycan binding site; other site 709991000139 Resistant to P. syringae 6; Provisional; Region: PLN03210 709991000140 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 709991000141 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 709991000142 MPN+ (JAMM) motif; other site 709991000143 Zinc-binding site [ion binding]; other site 709991000144 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 709991000145 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 709991000146 non-specific DNA binding site [nucleotide binding]; other site 709991000147 salt bridge; other site 709991000148 sequence-specific DNA binding site [nucleotide binding]; other site 709991000149 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 709991000150 Helix-turn-helix domains; Region: HTH; cl00088 709991000151 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 709991000152 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 709991000153 active site 709991000154 DNA binding site [nucleotide binding] 709991000155 Int/Topo IB signature motif; other site 709991000156 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 709991000157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000158 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991000159 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991000160 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000161 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991000162 RloB-like protein; Region: RloB; pfam13707 709991000163 AAA domain; Region: AAA_21; pfam13304 709991000164 FecR protein; Region: FecR; pfam04773 709991000165 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991000166 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000167 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000168 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000169 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000170 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000171 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000172 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991000173 catalytic residues [active] 709991000174 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 709991000175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000176 Walker A/P-loop; other site 709991000177 ATP binding site [chemical binding]; other site 709991000178 Q-loop/lid; other site 709991000179 ABC transporter signature motif; other site 709991000180 Walker B; other site 709991000181 D-loop; other site 709991000182 H-loop/switch region; other site 709991000183 ABC transporter; Region: ABC_tran_2; pfam12848 709991000184 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991000185 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000187 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000188 DNA binding residues [nucleotide binding] 709991000189 FecR protein; Region: FecR; pfam04773 709991000190 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000191 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991000192 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000193 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000194 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000195 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000196 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000197 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991000198 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991000199 catalytic residues [active] 709991000200 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991000201 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991000202 catalytic residues [active] 709991000203 YodL-like; Region: YodL; pfam14191 709991000204 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 709991000205 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991000206 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 709991000207 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 709991000208 HSP70 interaction site [polypeptide binding]; other site 709991000209 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 709991000210 dimer interface [polypeptide binding]; other site 709991000211 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000212 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000213 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991000214 FecR protein; Region: FecR; pfam04773 709991000215 Transposase domain (DUF772); Region: DUF772; cl15789 709991000216 Transposase domain (DUF772); Region: DUF772; cl15789 709991000217 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000218 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000219 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000220 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000221 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000222 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000223 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 709991000224 Domain of unknown function DUF; Region: DUF204; pfam02659 709991000225 Domain of unknown function DUF; Region: DUF204; pfam02659 709991000226 GSCFA family; Region: GSCFA; pfam08885 709991000227 Sporulation related domain; Region: SPOR; cl10051 709991000228 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 709991000229 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 709991000230 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 709991000231 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 709991000232 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 709991000233 NAD(P) binding site [chemical binding]; other site 709991000234 homodimer interface [polypeptide binding]; other site 709991000235 substrate binding site [chemical binding]; other site 709991000236 active site 709991000237 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991000238 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991000239 inhibitor-cofactor binding pocket; inhibition site 709991000240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991000241 catalytic residue [active] 709991000242 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 709991000243 ligand binding site; other site 709991000244 tetramer interface; other site 709991000245 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 709991000246 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 709991000247 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 709991000248 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991000249 catalytic residue [active] 709991000250 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 709991000251 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991000252 pseudaminic acid synthase; Region: PseI; TIGR03586 709991000253 NeuB family; Region: NeuB; cl00496 709991000254 SAF domain; Region: SAF; cl00555 709991000255 MatE; Region: MatE; cl10513 709991000256 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 709991000257 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 709991000258 Acyltransferase family; Region: Acyl_transf_3; pfam01757 709991000259 OpgC protein; Region: OpgC_C; cl00792 709991000260 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 709991000261 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 709991000262 active site 709991000263 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 709991000264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000265 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 709991000266 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 709991000267 putative NAD(P) binding site [chemical binding]; other site 709991000268 active site 709991000269 putative substrate binding site [chemical binding]; other site 709991000270 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 709991000271 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 709991000272 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991000273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000274 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 709991000275 active site 709991000276 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 709991000277 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 709991000278 putative ATP binding site [chemical binding]; other site 709991000279 putative substrate interface [chemical binding]; other site 709991000280 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 709991000281 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 709991000282 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 709991000283 active site 709991000284 HIGH motif; other site 709991000285 dimer interface [polypeptide binding]; other site 709991000286 KMSKS motif; other site 709991000287 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 709991000288 RuvA N terminal domain; Region: RuvA_N; pfam01330 709991000289 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 709991000290 potential frameshift: common BLAST hit: gi|188994696|ref|YP_001928948.1| gliding motility protein SprA 709991000291 Motility related/secretion protein; Region: SprA_N; pfam14349 709991000292 Motility related/secretion protein; Region: SprA_N; pfam14349 709991000293 Motility related/secretion protein; Region: SprA_N; pfam14349 709991000294 Motility related/secretion protein; Region: SprA_N; pfam14349 709991000295 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991000296 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 709991000297 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 709991000298 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 709991000299 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 709991000300 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 709991000301 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 709991000302 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 709991000303 S-adenosylmethionine binding site [chemical binding]; other site 709991000304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000305 UbiA prenyltransferase family; Region: UbiA; cl00337 709991000306 Amidinotransferase; Region: Amidinotransf; cl12043 709991000307 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 709991000308 MgtE intracellular N domain; Region: MgtE_N; cl15244 709991000309 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 709991000310 Divalent cation transporter; Region: MgtE; cl00786 709991000311 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 709991000312 S-adenosylmethionine binding site [chemical binding]; other site 709991000313 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 709991000314 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; cl15754 709991000315 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000316 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000317 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000318 DNA binding residues [nucleotide binding] 709991000319 FecR protein; Region: FecR; pfam04773 709991000320 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000321 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991000322 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000323 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000324 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000325 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000326 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000327 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 709991000328 active site 709991000329 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 709991000330 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 709991000331 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 709991000332 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 709991000333 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 709991000334 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991000335 dimer interface [polypeptide binding]; other site 709991000336 phosphorylation site [posttranslational modification] 709991000337 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 709991000338 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 709991000339 ATP binding site [chemical binding]; other site 709991000340 Mg2+ binding site [ion binding]; other site 709991000341 G-X-G motif; other site 709991000342 Response regulator receiver domain; Region: Response_reg; pfam00072 709991000343 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 709991000344 active site 709991000345 phosphorylation site [posttranslational modification] 709991000346 intermolecular recognition site; other site 709991000347 dimerization interface [polypeptide binding]; other site 709991000348 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991000349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991000350 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 709991000351 active site 709991000352 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 709991000353 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 709991000354 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 709991000355 putative substrate translocation pore; other site 709991000356 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 709991000357 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 709991000358 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 709991000359 transcription termination factor Rho; Provisional; Region: rho; PRK09376 709991000360 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 709991000361 RNA binding site [nucleotide binding]; other site 709991000362 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 709991000363 multimer interface [polypeptide binding]; other site 709991000364 Walker A motif; other site 709991000365 ATP binding site [chemical binding]; other site 709991000366 Walker B motif; other site 709991000367 Transposase domain (DUF772); Region: DUF772; cl15789 709991000368 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 709991000369 Transposase domain (DUF772); Region: DUF772; cl15789 709991000370 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991000371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000372 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 709991000373 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 709991000374 dimer interface [polypeptide binding]; other site 709991000375 PYR/PP interface [polypeptide binding]; other site 709991000376 TPP binding site [chemical binding]; other site 709991000377 substrate binding site [chemical binding]; other site 709991000378 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 709991000379 Domain of unknown function; Region: EKR; cl11037 709991000380 4Fe-4S binding domain; Region: Fer4; cl02805 709991000381 4Fe-4S binding domain; Region: Fer4; cl02805 709991000382 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 709991000383 TPP-binding site [chemical binding]; other site 709991000384 dimer interface [polypeptide binding]; other site 709991000385 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 709991000386 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 709991000387 active site 709991000388 metal binding site [ion binding]; metal-binding site 709991000389 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 709991000390 Response regulator receiver domain; Region: Response_reg; pfam00072 709991000391 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 709991000392 active site 709991000393 phosphorylation site [posttranslational modification] 709991000394 intermolecular recognition site; other site 709991000395 dimerization interface [polypeptide binding]; other site 709991000396 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 709991000397 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 709991000398 putative dimer interface [polypeptide binding]; other site 709991000399 [2Fe-2S] cluster binding site [ion binding]; other site 709991000400 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 709991000401 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 709991000402 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 709991000403 4Fe-4S binding domain; Region: Fer4; cl02805 709991000404 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 709991000405 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 709991000406 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 709991000407 dimer interface [polypeptide binding]; other site 709991000408 [2Fe-2S] cluster binding site [ion binding]; other site 709991000409 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 709991000410 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 709991000411 SLBB domain; Region: SLBB; pfam10531 709991000412 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 709991000413 4Fe-4S binding domain; Region: Fer4; cl02805 709991000414 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 709991000415 4Fe-4S binding domain; Region: Fer4; cl02805 709991000416 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 709991000417 dimer interface [polypeptide binding]; other site 709991000418 [2Fe-2S] cluster binding site [ion binding]; other site 709991000419 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 709991000420 ATP binding site [chemical binding]; other site 709991000421 Mg2+ binding site [ion binding]; other site 709991000422 G-X-G motif; other site 709991000423 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 709991000424 PHP-associated; Region: PHP_C; pfam13263 709991000425 DRTGG domain; Region: DRTGG; cl12147 709991000426 4Fe-4S binding domain; Region: Fer4; cl02805 709991000427 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 709991000428 4Fe-4S binding domain; Region: Fer4; cl02805 709991000429 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 709991000430 Predicted Fe-S protein [General function prediction only]; Region: COG2000 709991000431 Putative Fe-S cluster; Region: FeS; pfam04060 709991000432 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 709991000433 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 709991000434 ATP binding site [chemical binding]; other site 709991000435 Mg2+ binding site [ion binding]; other site 709991000436 G-X-G motif; other site 709991000437 DRTGG domain; Region: DRTGG; cl12147 709991000438 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 709991000439 Ligase N family; Region: LIGANc; smart00532 709991000440 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 709991000441 nucleotide binding pocket [chemical binding]; other site 709991000442 K-X-D-G motif; other site 709991000443 catalytic site [active] 709991000444 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 709991000445 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 709991000446 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 709991000447 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 709991000448 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 709991000449 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 709991000450 Dimer interface [polypeptide binding]; other site 709991000451 BRCT sequence motif; other site 709991000452 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 709991000453 Clp amino terminal domain; Region: Clp_N; pfam02861 709991000454 Clp amino terminal domain; Region: Clp_N; pfam02861 709991000455 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991000456 Walker A motif; other site 709991000457 ATP binding site [chemical binding]; other site 709991000458 Walker B motif; other site 709991000459 arginine finger; other site 709991000460 UvrB/uvrC motif; Region: UVR; pfam02151 709991000461 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991000462 Walker A motif; other site 709991000463 ATP binding site [chemical binding]; other site 709991000464 Walker B motif; other site 709991000465 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 709991000466 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 709991000467 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 709991000468 putative DNA binding site [nucleotide binding]; other site 709991000469 putative Zn2+ binding site [ion binding]; other site 709991000470 Helix-turn-helix domains; Region: HTH; cl00088 709991000471 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 709991000472 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 709991000473 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 709991000474 multiple promoter invertase; Provisional; Region: mpi; PRK13413 709991000475 catalytic residues [active] 709991000476 catalytic nucleophile [active] 709991000477 Presynaptic Site I dimer interface [polypeptide binding]; other site 709991000478 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 709991000479 Synaptic Flat tetramer interface [polypeptide binding]; other site 709991000480 Synaptic Site I dimer interface [polypeptide binding]; other site 709991000481 DNA binding site [nucleotide binding] 709991000482 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 709991000483 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991000484 N-terminal plug; other site 709991000485 ligand-binding site [chemical binding]; other site 709991000486 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000487 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000488 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000489 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000490 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991000491 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 709991000492 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 709991000493 Interdomain contacts; other site 709991000494 Cytokine receptor motif; other site 709991000495 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 709991000496 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991000497 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 709991000498 gliding motility-associated protein GldE; Region: GldE; TIGR03520 709991000499 Domain of unknown function DUF21; Region: DUF21; pfam01595 709991000500 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 709991000501 Transporter associated domain; Region: CorC_HlyC; cl08393 709991000502 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 709991000503 putative active site [active] 709991000504 putative NTP binding site [chemical binding]; other site 709991000505 putative nucleic acid binding site [nucleotide binding]; other site 709991000506 Type II intron maturase; Region: Intron_maturas2; pfam01348 709991000507 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 709991000508 dimer interface [polypeptide binding]; other site 709991000509 ssDNA binding site [nucleotide binding]; other site 709991000510 tetramer (dimer of dimers) interface [polypeptide binding]; other site 709991000511 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 709991000512 IHF - DNA interface [nucleotide binding]; other site 709991000513 IHF dimer interface [polypeptide binding]; other site 709991000514 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 709991000515 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 709991000516 homodimer interface [polypeptide binding]; other site 709991000517 oligonucleotide binding site [chemical binding]; other site 709991000518 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 709991000519 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991000520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000521 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000522 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000523 DNA binding residues [nucleotide binding] 709991000524 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 709991000525 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 709991000526 Lipocalin-like; Region: Lipocalin_3; pfam12702 709991000527 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 709991000528 GTP-binding protein YchF; Reviewed; Region: PRK09601 709991000529 YchF GTPase; Region: YchF; cd01900 709991000530 G1 box; other site 709991000531 GTP/Mg2+ binding site [chemical binding]; other site 709991000532 Switch I region; other site 709991000533 G2 box; other site 709991000534 Switch II region; other site 709991000535 G3 box; other site 709991000536 G4 box; other site 709991000537 G5 box; other site 709991000538 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 709991000539 Glycosyl hydrolase family 43; Region: GH43_5; cd08984 709991000540 active site 709991000541 Glycosyl hydrolase family 43; Region: GH43_ABN_2; cd08999 709991000542 putative substrate binding site [chemical binding]; other site 709991000543 active site 709991000544 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 709991000545 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 709991000546 active site 709991000547 catalytic residues [active] 709991000548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 709991000549 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 709991000550 Uncharacterized conserved protein [Function unknown]; Region: COG1624 709991000551 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 709991000552 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 709991000553 ATP binding site [chemical binding]; other site 709991000554 active site 709991000555 substrate binding site [chemical binding]; other site 709991000556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000557 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 709991000558 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 709991000559 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 709991000560 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 709991000561 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 709991000562 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 709991000563 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 709991000564 4Fe-4S binding domain; Region: Fer4; cl02805 709991000565 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 709991000566 FAD dependent oxidoreductase; Region: DAO; pfam01266 709991000567 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 709991000568 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 709991000569 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 709991000570 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 709991000571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000572 Walker A/P-loop; other site 709991000573 ATP binding site [chemical binding]; other site 709991000574 Q-loop/lid; other site 709991000575 ABC transporter signature motif; other site 709991000576 Walker B; other site 709991000577 D-loop; other site 709991000578 H-loop/switch region; other site 709991000579 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 709991000580 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 709991000581 substrate binding site [chemical binding]; other site 709991000582 hexamer interface [polypeptide binding]; other site 709991000583 metal binding site [ion binding]; metal-binding site 709991000584 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 709991000585 trimer interface [polypeptide binding]; other site 709991000586 putative metal binding site [ion binding]; other site 709991000587 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 709991000588 putative dimer interface [polypeptide binding]; other site 709991000589 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 709991000590 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 709991000591 active site 709991000592 AAA domain; Region: AAA_22; pfam13401 709991000593 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000594 Family description; Region: UvrD_C_2; cl15862 709991000595 HRDC domain; Region: HRDC; cl02578 709991000596 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 709991000597 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 709991000598 recombination factor protein RarA; Reviewed; Region: PRK13342 709991000599 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991000600 Walker A motif; other site 709991000601 ATP binding site [chemical binding]; other site 709991000602 Walker B motif; other site 709991000603 arginine finger; other site 709991000604 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 709991000605 NeuB family; Region: NeuB; cl00496 709991000606 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 709991000607 Domain of unknown function DUF21; Region: DUF21; pfam01595 709991000608 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 709991000609 Transporter associated domain; Region: CorC_HlyC; cl08393 709991000610 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 709991000611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000612 Walker A/P-loop; other site 709991000613 ATP binding site [chemical binding]; other site 709991000614 Q-loop/lid; other site 709991000615 ABC transporter signature motif; other site 709991000616 Walker B; other site 709991000617 D-loop; other site 709991000618 H-loop/switch region; other site 709991000619 Plant ATP synthase F0; Region: YMF19; cl07975 709991000620 Smr domain; Region: Smr; cl02619 709991000621 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991000622 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991000623 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991000624 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991000625 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 709991000626 16S/18S rRNA binding site [nucleotide binding]; other site 709991000627 S13e-L30e interaction site [polypeptide binding]; other site 709991000628 25S rRNA binding site [nucleotide binding]; other site 709991000629 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 709991000630 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 709991000631 RNase E interface [polypeptide binding]; other site 709991000632 trimer interface [polypeptide binding]; other site 709991000633 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 709991000634 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 709991000635 RNase E interface [polypeptide binding]; other site 709991000636 trimer interface [polypeptide binding]; other site 709991000637 active site 709991000638 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 709991000639 putative nucleic acid binding region [nucleotide binding]; other site 709991000640 G-X-X-G motif; other site 709991000641 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 709991000642 RNA binding site [nucleotide binding]; other site 709991000643 domain interface; other site 709991000644 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 709991000645 intersubunit interface [polypeptide binding]; other site 709991000646 active site 709991000647 Zn2+ binding site [ion binding]; other site 709991000648 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 709991000649 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 709991000650 NVEALA protein; Region: NVEALA; pfam14055 709991000651 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991000652 Clostripain family; Region: Peptidase_C11; cl04055 709991000653 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 709991000654 MatE; Region: MatE; cl10513 709991000655 MatE; Region: MatE; cl10513 709991000656 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 709991000657 putative ADP-ribose binding site [chemical binding]; other site 709991000658 putative active site [active] 709991000659 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 709991000660 Major Facilitator Superfamily; Region: MFS_1; pfam07690 709991000661 putative substrate translocation pore; other site 709991000662 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 709991000663 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 709991000664 active site 709991000665 Na/Ca binding site [ion binding]; other site 709991000666 catalytic site [active] 709991000667 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 709991000668 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 709991000669 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 709991000670 Ca binding site [ion binding]; other site 709991000671 active site 709991000672 catalytic site [active] 709991000673 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 709991000674 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 709991000675 ATP binding site [chemical binding]; other site 709991000676 putative Mg++ binding site [ion binding]; other site 709991000677 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 709991000678 nucleotide binding region [chemical binding]; other site 709991000679 ATP-binding site [chemical binding]; other site 709991000680 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 709991000681 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 709991000682 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; cl15754 709991000683 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 709991000684 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 709991000685 tetramer interface [polypeptide binding]; other site 709991000686 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991000687 catalytic residue [active] 709991000688 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991000689 putative transporter; Validated; Region: PRK03818 709991000690 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 709991000691 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991000692 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 709991000693 NlpC/P60 family; Region: NLPC_P60; cl11438 709991000694 WbqC-like protein family; Region: WbqC; pfam08889 709991000695 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 709991000696 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 709991000697 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 709991000698 active site 709991000699 catalytic site [active] 709991000700 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 709991000701 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 709991000702 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 709991000703 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 709991000704 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 709991000705 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 709991000706 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 709991000707 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 709991000708 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 709991000709 Glycogen synthase; Region: Glycogen_syn; pfam05693 709991000710 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 709991000711 putative homodimer interface [polypeptide binding]; other site 709991000712 putative active site pocket [active] 709991000713 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 709991000714 thymidine kinase; Provisional; Region: PRK04296 709991000715 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000716 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000717 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991000718 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 709991000719 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 709991000720 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 709991000721 ATP binding site [chemical binding]; other site 709991000722 putative Mg++ binding site [ion binding]; other site 709991000723 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 709991000724 nucleotide binding region [chemical binding]; other site 709991000725 ATP-binding site [chemical binding]; other site 709991000726 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000727 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000728 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 709991000729 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 709991000730 Family description; Region: UvrD_C_2; cl15862 709991000731 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 709991000732 cysteate synthase; Region: cysteate_syn; TIGR03844 709991000733 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 709991000734 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991000735 catalytic residue [active] 709991000736 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 709991000737 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 709991000738 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 709991000739 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 709991000740 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 709991000741 putative active site [active] 709991000742 substrate binding site [chemical binding]; other site 709991000743 putative cosubstrate binding site; other site 709991000744 catalytic site [active] 709991000745 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 709991000746 substrate binding site [chemical binding]; other site 709991000747 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000749 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991000750 DNA binding residues [nucleotide binding] 709991000751 FecR protein; Region: FecR; pfam04773 709991000752 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000753 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991000754 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000755 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000756 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000757 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991000758 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000759 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000760 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991000761 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991000762 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 709991000763 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991000764 Walker A motif; other site 709991000765 ATP binding site [chemical binding]; other site 709991000766 Walker B motif; other site 709991000767 arginine finger; other site 709991000768 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 709991000769 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 709991000770 SelR domain; Region: SelR; pfam01641 709991000771 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 709991000772 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 709991000773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000774 NAD(P) binding site [chemical binding]; other site 709991000775 active site 709991000776 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 709991000777 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 709991000778 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 709991000779 FeS/SAM binding site; other site 709991000780 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 709991000781 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 709991000782 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991000783 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991000784 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991000785 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991000786 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 709991000787 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 709991000788 Walker A/P-loop; other site 709991000789 ATP binding site [chemical binding]; other site 709991000790 Q-loop/lid; other site 709991000791 ABC transporter signature motif; other site 709991000792 Walker B; other site 709991000793 D-loop; other site 709991000794 H-loop/switch region; other site 709991000795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991000796 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 709991000797 FtsX-like permease family; Region: FtsX; cl15850 709991000798 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 709991000799 Histidine kinase; Region: His_kinase; pfam06580 709991000800 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 709991000801 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 709991000802 active site 709991000803 phosphorylation site [posttranslational modification] 709991000804 intermolecular recognition site; other site 709991000805 dimerization interface [polypeptide binding]; other site 709991000806 LytTr DNA-binding domain; Region: LytTR; cl04498 709991000807 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 709991000808 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 709991000809 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991000810 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991000811 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991000812 MatE; Region: MatE; cl10513 709991000813 MatE; Region: MatE; cl10513 709991000814 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 709991000815 NAD binding pocket [chemical binding]; other site 709991000816 beta-alpha-beta structure motif; other site 709991000817 4Fe-4S binding domain; Region: Fer4; cl02805 709991000818 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 709991000819 4Fe-4S binding domain; Region: Fer4; cl02805 709991000820 MG2 domain; Region: A2M_N; pfam01835 709991000821 Initiator Replication protein; Region: Rep_3; cl03080 709991000822 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 709991000823 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 709991000824 active site 709991000825 Zn binding site [ion binding]; other site 709991000826 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000827 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000828 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000829 DNA binding residues [nucleotide binding] 709991000830 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 709991000831 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 709991000832 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 709991000833 active site 709991000834 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991000835 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991000836 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000838 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000839 DNA binding residues [nucleotide binding] 709991000840 FecR protein; Region: FecR; pfam04773 709991000841 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000842 Transposase domain (DUF772); Region: DUF772; cl15789 709991000843 Transposase domain (DUF772); Region: DUF772; cl15789 709991000844 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 709991000845 putative catalytic site [active] 709991000846 putative metal binding site [ion binding]; other site 709991000847 putative phosphate binding site [ion binding]; other site 709991000848 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 709991000849 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 709991000850 LytB protein; Region: LYTB; cl00507 709991000851 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 709991000852 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 709991000853 active site 709991000854 ADP/pyrophosphate binding site [chemical binding]; other site 709991000855 dimerization interface [polypeptide binding]; other site 709991000856 allosteric effector site; other site 709991000857 fructose-1,6-bisphosphate binding site; other site 709991000858 primosome assembly protein PriA; Validated; Region: PRK05580 709991000859 primosome assembly protein PriA; Validated; Region: PRK05580 709991000860 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 709991000861 ATP binding site [chemical binding]; other site 709991000862 putative Mg++ binding site [ion binding]; other site 709991000863 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000864 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000866 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991000867 DNA binding residues [nucleotide binding] 709991000868 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000869 FecR protein; Region: FecR; pfam04773 709991000870 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991000871 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991000872 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991000873 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000874 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000875 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 709991000876 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 709991000877 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 709991000878 putative active site [active] 709991000879 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991000880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000881 Walker A/P-loop; other site 709991000882 ATP binding site [chemical binding]; other site 709991000883 Q-loop/lid; other site 709991000884 ABC transporter signature motif; other site 709991000885 Walker B; other site 709991000886 D-loop; other site 709991000887 H-loop/switch region; other site 709991000888 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991000889 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991000890 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991000891 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991000892 Ion channel; Region: Ion_trans_2; cl11596 709991000893 Glutaminase; Region: Glutaminase; cl00907 709991000894 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 709991000895 chorismate binding enzyme; Region: Chorismate_bind; cl10555 709991000896 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 709991000897 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 709991000898 dimer interface [polypeptide binding]; other site 709991000899 tetramer interface [polypeptide binding]; other site 709991000900 PYR/PP interface [polypeptide binding]; other site 709991000901 TPP binding site [chemical binding]; other site 709991000902 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 709991000903 TPP-binding site; other site 709991000904 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 709991000905 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 709991000906 substrate binding site [chemical binding]; other site 709991000907 oxyanion hole (OAH) forming residues; other site 709991000908 trimer interface [polypeptide binding]; other site 709991000909 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 709991000910 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 709991000911 active site 709991000912 AMP-binding enzyme; Region: AMP-binding; cl15778 709991000913 acyl-CoA synthetase; Validated; Region: PRK07798 709991000914 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 709991000915 Major Facilitator Superfamily; Region: MFS_1; pfam07690 709991000916 putative substrate translocation pore; other site 709991000917 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 709991000918 FeS/SAM binding site; other site 709991000919 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 709991000920 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 709991000921 S-adenosylmethionine binding site [chemical binding]; other site 709991000922 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991000923 transmembrane helices; other site 709991000924 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 709991000925 non-specific DNA binding site [nucleotide binding]; other site 709991000926 salt bridge; other site 709991000927 sequence-specific DNA binding site [nucleotide binding]; other site 709991000928 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 709991000929 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 709991000930 Domain of unknown function (DUF2027); Region: DUF2027; pfam09640 709991000931 Smr domain; Region: Smr; cl02619 709991000932 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 709991000933 peroxiredoxin; Provisional; Region: PRK13189 709991000934 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 709991000935 dimer interface [polypeptide binding]; other site 709991000936 decamer (pentamer of dimers) interface [polypeptide binding]; other site 709991000937 catalytic triad [active] 709991000938 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 709991000939 dimerization interface [polypeptide binding]; other site 709991000940 substrate binding site [chemical binding]; other site 709991000941 active site 709991000942 calcium binding site [ion binding]; other site 709991000943 urocanate hydratase; Provisional; Region: PRK05414 709991000944 EamA-like transporter family; Region: EamA; cl01037 709991000945 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 709991000946 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 709991000947 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991000948 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 709991000949 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 709991000950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000951 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 709991000952 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 709991000953 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 709991000954 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 709991000955 active site 709991000956 dimer interface [polypeptide binding]; other site 709991000957 motif 1; other site 709991000958 motif 2; other site 709991000959 motif 3; other site 709991000960 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 709991000961 anticodon binding site; other site 709991000962 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 709991000963 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 709991000964 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 709991000965 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 709991000966 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 709991000967 23S rRNA binding site [nucleotide binding]; other site 709991000968 L21 binding site [polypeptide binding]; other site 709991000969 L13 binding site [polypeptide binding]; other site 709991000970 dihydrodipicolinate reductase; Provisional; Region: PRK00048 709991000971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000972 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 709991000973 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 709991000974 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 709991000975 Catalytic site [active] 709991000976 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 709991000977 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 709991000978 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 709991000979 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 709991000980 putative active site [active] 709991000981 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991000982 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 709991000983 DJ-1 family protein; Region: not_thiJ; TIGR01383 709991000984 conserved cys residue [active] 709991000985 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991000986 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991000987 FecR protein; Region: FecR; pfam04773 709991000988 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991000989 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991000990 Helix-turn-helix domains; Region: HTH; cl00088 709991000991 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 709991000992 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 709991000993 Cysteine-rich domain; Region: CCG; pfam02754 709991000994 Cysteine-rich domain; Region: CCG; pfam02754 709991000995 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 709991000996 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 709991000997 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 709991000998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991000999 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 709991001000 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 709991001001 Cysteine-rich domain; Region: CCG; pfam02754 709991001002 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 709991001003 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 709991001004 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; cd00529 709991001005 active site 709991001006 putative DNA-binding cleft [nucleotide binding]; other site 709991001007 dimer interface [polypeptide binding]; other site 709991001008 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 709991001009 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 709991001010 binding surface 709991001011 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 709991001012 TPR motif; other site 709991001013 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 709991001014 binding surface 709991001015 TPR motif; other site 709991001016 seryl-tRNA synthetase; Provisional; Region: PRK05431 709991001017 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 709991001018 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 709991001019 dimer interface [polypeptide binding]; other site 709991001020 active site 709991001021 motif 1; other site 709991001022 motif 2; other site 709991001023 motif 3; other site 709991001024 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 709991001025 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 709991001026 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991001027 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 709991001028 putative active site [active] 709991001029 Peptidase family M48; Region: Peptidase_M48; cl12018 709991001030 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 709991001031 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 709991001032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001033 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 709991001034 putative acyl-acceptor binding pocket; other site 709991001035 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 709991001036 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 709991001037 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 709991001038 ATP-binding site [chemical binding]; other site 709991001039 Sugar specificity; other site 709991001040 Pyrimidine base specificity; other site 709991001041 Predicted amidohydrolase [General function prediction only]; Region: COG0388 709991001042 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 709991001043 active site 709991001044 catalytic triad [active] 709991001045 dimer interface [polypeptide binding]; other site 709991001046 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991001047 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 709991001048 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 709991001049 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 709991001050 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 709991001051 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 709991001052 RNA binding site [nucleotide binding]; other site 709991001053 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 709991001054 RNA binding site [nucleotide binding]; other site 709991001055 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 709991001056 RNA binding site [nucleotide binding]; other site 709991001057 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 709991001058 RNA binding site [nucleotide binding]; other site 709991001059 S1_RPS1_repeat_ec5: 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_ec5; cd05690 709991001060 RNA binding site [nucleotide binding]; other site 709991001061 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 709991001062 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991001063 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 709991001064 potential frameshift: common BLAST hit: gi|150006492|ref|YP_001301236.1| transposase 709991001065 Transposase domain (DUF772); Region: DUF772; cl15789 709991001066 Transposase domain (DUF772); Region: DUF772; cl15789 709991001067 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001068 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991001069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001070 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991001071 FecR protein; Region: FecR; pfam04773 709991001072 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991001073 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001074 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001075 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001076 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001077 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991001078 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991001079 Transposase domain (DUF772); Region: DUF772; cl15789 709991001080 Transposase domain (DUF772); Region: DUF772; cl15789 709991001081 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991001082 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001083 catalytic residues [active] 709991001084 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991001085 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 709991001086 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 709991001087 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 709991001088 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001089 catalytic residues [active] 709991001090 Response regulator receiver domain; Region: Response_reg; pfam00072 709991001091 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 709991001092 active site 709991001093 phosphorylation site [posttranslational modification] 709991001094 intermolecular recognition site; other site 709991001095 dimerization interface [polypeptide binding]; other site 709991001096 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 709991001097 dimer interface [polypeptide binding]; other site 709991001098 phosphorylation site [posttranslational modification] 709991001099 sensory histidine kinase CreC; Provisional; Region: PRK11100 709991001100 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 709991001101 ATP binding site [chemical binding]; other site 709991001102 Mg2+ binding site [ion binding]; other site 709991001103 G-X-G motif; other site 709991001104 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 709991001105 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 709991001106 Substrate binding site; other site 709991001107 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 709991001108 substrate binding site [chemical binding]; other site 709991001109 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991001110 active site 709991001111 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 709991001112 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 709991001113 substrate binding pocket [chemical binding]; other site 709991001114 Glycerate kinase family; Region: Gly_kinase; cl00841 709991001115 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 709991001116 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 709991001117 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 709991001118 nucleotide binding region [chemical binding]; other site 709991001119 ATP-binding site [chemical binding]; other site 709991001120 SEC-C motif; Region: SEC-C; pfam02810 709991001121 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 709991001122 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 709991001123 nucleoside/Zn binding site; other site 709991001124 dimer interface [polypeptide binding]; other site 709991001125 catalytic motif [active] 709991001126 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991001127 FecR protein; Region: FecR; pfam04773 709991001128 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991001129 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001130 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001131 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001132 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001133 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991001134 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991001135 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001136 catalytic residues [active] 709991001137 Cache domain; Region: Cache_1; pfam02743 709991001138 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 709991001139 Histidine kinase; Region: His_kinase; pfam06580 709991001140 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 709991001141 active site 709991001142 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001143 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001144 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001145 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001146 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991001147 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 709991001148 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 709991001149 active site 709991001150 phosphorylation site [posttranslational modification] 709991001151 intermolecular recognition site; other site 709991001152 dimerization interface [polypeptide binding]; other site 709991001153 LytTr DNA-binding domain; Region: LytTR; cl04498 709991001154 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 709991001155 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001156 catalytic residues [active] 709991001157 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991001158 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001159 catalytic residues [active] 709991001160 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991001161 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991001162 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001163 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001164 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001165 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001166 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001167 FecR protein; Region: FecR; pfam04773 709991001168 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991001169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001170 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991001171 DNA binding residues [nucleotide binding] 709991001172 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 709991001173 non-specific DNA binding site [nucleotide binding]; other site 709991001174 salt bridge; other site 709991001175 sequence-specific DNA binding site [nucleotide binding]; other site 709991001176 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 709991001177 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 709991001178 putative active site [active] 709991001179 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991001180 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001181 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001182 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 709991001183 YcaO-like family; Region: YcaO; pfam02624 709991001184 Abi-like protein; Region: Abi_2; cl01988 709991001185 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 709991001186 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 709991001187 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 709991001188 ATP binding site [chemical binding]; other site 709991001189 putative Mg++ binding site [ion binding]; other site 709991001190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001191 nucleotide binding region [chemical binding]; other site 709991001192 ATP-binding site [chemical binding]; other site 709991001193 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 709991001194 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 709991001195 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 709991001196 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 709991001197 active site 709991001198 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 709991001199 active site 709991001200 oligomerization interface [polypeptide binding]; other site 709991001201 metal binding site [ion binding]; metal-binding site 709991001202 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 709991001203 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 709991001204 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 709991001205 FtsH Extracellular; Region: FtsH_ext; pfam06480 709991001206 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 709991001207 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991001208 Walker A motif; other site 709991001209 ATP binding site [chemical binding]; other site 709991001210 Walker B motif; other site 709991001211 arginine finger; other site 709991001212 Peptidase family M41; Region: Peptidase_M41; pfam01434 709991001213 Oligomerisation domain; Region: Oligomerisation; cl00519 709991001214 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 709991001215 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 709991001216 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991001217 catalytic residue [active] 709991001218 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 709991001219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001220 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991001221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991001222 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 709991001223 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991001224 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991001225 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991001226 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991001227 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 709991001228 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991001229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001230 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 709991001231 AMP-binding enzyme; Region: AMP-binding; cl15778 709991001232 fumarate hydratase; Provisional; Region: PRK15389 709991001233 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 709991001234 Fumarase C-terminus; Region: Fumerase_C; cl00795 709991001235 Peptidase family M48; Region: Peptidase_M48; cl12018 709991001236 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 709991001237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 709991001238 DNA-binding site [nucleotide binding]; DNA binding site 709991001239 UTRA domain; Region: UTRA; cl01230 709991001240 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 709991001241 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 709991001242 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 709991001243 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 709991001244 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 709991001245 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 709991001246 NVEALA protein; Region: NVEALA; pfam14055 709991001247 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991001248 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 709991001249 ATP binding site [chemical binding]; other site 709991001250 Mg2+ binding site [ion binding]; other site 709991001251 G-X-G motif; other site 709991001252 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 709991001253 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 709991001254 Domain of unknown function (DUF303); Region: DUF303; pfam03629 709991001255 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 709991001256 Domain of unknown function (DUF303); Region: DUF303; pfam03629 709991001257 competence damage-inducible protein A; Provisional; Region: PRK00549 709991001258 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 709991001259 putative MPT binding site; other site 709991001260 Competence-damaged protein; Region: CinA; cl00666 709991001261 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 709991001262 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 709991001263 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991001264 Response regulator receiver domain; Region: Response_reg; pfam00072 709991001265 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 709991001266 active site 709991001267 phosphorylation site [posttranslational modification] 709991001268 intermolecular recognition site; other site 709991001269 dimerization interface [polypeptide binding]; other site 709991001270 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 709991001271 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 709991001272 Walker A/P-loop; other site 709991001273 ATP binding site [chemical binding]; other site 709991001274 Q-loop/lid; other site 709991001275 ABC transporter signature motif; other site 709991001276 Walker B; other site 709991001277 D-loop; other site 709991001278 H-loop/switch region; other site 709991001279 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991001280 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991001281 FtsX-like permease family; Region: FtsX; cl15850 709991001282 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 709991001283 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 709991001284 binding surface 709991001285 TPR motif; other site 709991001286 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 709991001287 binding surface 709991001288 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991001289 TPR motif; other site 709991001290 Nudix hydrolase homolog; Region: PLN02791 709991001291 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 709991001292 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 709991001293 recombinase A; Provisional; Region: recA; PRK09354 709991001294 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 709991001295 hexamer interface [polypeptide binding]; other site 709991001296 Walker A motif; other site 709991001297 ATP binding site [chemical binding]; other site 709991001298 Walker B motif; other site 709991001299 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 709991001300 catalytic triad [active] 709991001301 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 709991001302 CoenzymeA binding site [chemical binding]; other site 709991001303 subunit interaction site [polypeptide binding]; other site 709991001304 PHB binding site; other site 709991001305 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 709991001306 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991001307 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 709991001308 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 709991001309 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 709991001310 CysD dimerization site [polypeptide binding]; other site 709991001311 G1 box; other site 709991001312 putative GEF interaction site [polypeptide binding]; other site 709991001313 GTP/Mg2+ binding site [chemical binding]; other site 709991001314 Switch I region; other site 709991001315 G2 box; other site 709991001316 G3 box; other site 709991001317 Switch II region; other site 709991001318 G4 box; other site 709991001319 G5 box; other site 709991001320 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 709991001321 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 709991001322 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 709991001323 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 709991001324 Active Sites [active] 709991001325 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 709991001326 AAA domain; Region: AAA_33; pfam13671 709991001327 ligand-binding site [chemical binding]; other site 709991001328 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 709991001329 active site 709991001330 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 709991001331 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 709991001332 dimerization interface [polypeptide binding]; other site 709991001333 ATP binding site [chemical binding]; other site 709991001334 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 709991001335 dimerization interface [polypeptide binding]; other site 709991001336 ATP binding site [chemical binding]; other site 709991001337 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 709991001338 putative active site [active] 709991001339 catalytic triad [active] 709991001340 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 709991001341 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 709991001342 active site 709991001343 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 709991001344 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 709991001345 Protein export membrane protein; Region: SecD_SecF; cl14618 709991001346 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991001347 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991001348 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991001349 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 709991001350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001351 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 709991001352 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 709991001353 metal binding site [ion binding]; metal-binding site 709991001354 dimer interface [polypeptide binding]; other site 709991001355 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 709991001356 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 709991001357 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 709991001358 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 709991001359 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 709991001360 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 709991001361 putative substrate binding site [chemical binding]; other site 709991001362 putative ATP binding site [chemical binding]; other site 709991001363 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 709991001364 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 709991001365 active site 709991001366 Zn binding site [ion binding]; other site 709991001367 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 709991001368 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 709991001369 Ligand Binding Site [chemical binding]; other site 709991001370 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 709991001371 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 709991001372 substrate-cofactor binding pocket; other site 709991001373 chorismate binding enzyme; Region: Chorismate_bind; cl10555 709991001374 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 709991001375 Glutamine amidotransferase class-I; Region: GATase; pfam00117 709991001376 glutamine binding [chemical binding]; other site 709991001377 catalytic triad [active] 709991001378 MutS domain III; Region: MutS_III; pfam05192 709991001379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001380 Walker A/P-loop; other site 709991001381 ATP binding site [chemical binding]; other site 709991001382 Q-loop/lid; other site 709991001383 ABC transporter signature motif; other site 709991001384 Walker B; other site 709991001385 D-loop; other site 709991001386 H-loop/switch region; other site 709991001387 Predicted membrane protein [Function unknown]; Region: COG2860 709991001388 UPF0126 domain; Region: UPF0126; pfam03458 709991001389 UPF0126 domain; Region: UPF0126; pfam03458 709991001390 Cupin domain; Region: Cupin_2; cl09118 709991001391 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 709991001392 catalytic residues [active] 709991001393 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 709991001394 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 709991001395 Conserved TM helix; Region: TM_helix; pfam05552 709991001396 Mechanosensitive ion channel; Region: MS_channel; pfam00924 709991001397 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 709991001398 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 709991001399 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991001400 active site 709991001401 HIGH motif; other site 709991001402 nucleotide binding site [chemical binding]; other site 709991001403 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 709991001404 KMSK motif region; other site 709991001405 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 709991001406 tRNA binding surface [nucleotide binding]; other site 709991001407 anticodon binding site; other site 709991001408 histidinol-phosphatase; Provisional; Region: PRK07328 709991001409 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 709991001410 TSCPD domain; Region: TSCPD; cl14834 709991001411 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 709991001412 active site 709991001413 dimerization interface [polypeptide binding]; other site 709991001414 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991001415 MatE; Region: MatE; cl10513 709991001416 MatE; Region: MatE; cl10513 709991001417 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 709991001418 active site 709991001419 nucleophile elbow; other site 709991001420 GMP synthase; Reviewed; Region: guaA; PRK00074 709991001421 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 709991001422 AMP/PPi binding site [chemical binding]; other site 709991001423 candidate oxyanion hole; other site 709991001424 catalytic triad [active] 709991001425 potential glutamine specificity residues [chemical binding]; other site 709991001426 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 709991001427 ATP Binding subdomain [chemical binding]; other site 709991001428 Ligand Binding sites [chemical binding]; other site 709991001429 Dimerization subdomain; other site 709991001430 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 709991001431 DHH family; Region: DHH; pfam01368 709991001432 DHHA1 domain; Region: DHHA1; pfam02272 709991001433 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 709991001434 Transcriptional regulators [Transcription]; Region: MarR; COG1846 709991001435 Helix-turn-helix domains; Region: HTH; cl00088 709991001436 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 709991001437 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 709991001438 metal binding site [ion binding]; metal-binding site 709991001439 dimer interface [polypeptide binding]; other site 709991001440 GAF domain; Region: GAF; cl15785 709991001441 Transposase domain (DUF772); Region: DUF772; cl15789 709991001442 Transposase domain (DUF772); Region: DUF772; cl15789 709991001443 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991001444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001445 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991001446 DNA binding residues [nucleotide binding] 709991001447 DDE superfamily endonuclease; Region: DDE_5; cl02413 709991001448 FecR protein; Region: FecR; pfam04773 709991001449 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001450 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001451 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001452 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001453 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991001454 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001455 catalytic residues [active] 709991001456 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 709991001457 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 709991001458 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 709991001459 dimerization interface 3.5A [polypeptide binding]; other site 709991001460 active site 709991001461 exonuclease subunit SbcC; Provisional; Region: PRK10246 709991001462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001463 Walker A/P-loop; other site 709991001464 ATP binding site [chemical binding]; other site 709991001465 Q-loop/lid; other site 709991001466 exonuclease subunit SbcC; Provisional; Region: PRK10246 709991001467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001468 ABC transporter signature motif; other site 709991001469 Walker B; other site 709991001470 D-loop; other site 709991001471 H-loop/switch region; other site 709991001472 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 709991001473 active site 709991001474 metal binding site [ion binding]; metal-binding site 709991001475 DNA binding site [nucleotide binding] 709991001476 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 709991001477 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 709991001478 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 709991001479 FeS/SAM binding site; other site 709991001480 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 709991001481 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 709991001482 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991001483 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991001484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001485 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991001486 DNA binding residues [nucleotide binding] 709991001487 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 709991001488 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991001489 catalytic residue [active] 709991001490 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 709991001491 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 709991001492 phosphate binding site [ion binding]; other site 709991001493 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 709991001494 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 709991001495 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 709991001496 ATP binding site [chemical binding]; other site 709991001497 substrate interface [chemical binding]; other site 709991001498 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 709991001499 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 709991001500 FeS/SAM binding site; other site 709991001501 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 709991001502 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 709991001503 ThiS interaction site; other site 709991001504 putative active site [active] 709991001505 tetramer interface [polypeptide binding]; other site 709991001506 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 709991001507 thiamine phosphate binding site [chemical binding]; other site 709991001508 active site 709991001509 pyrophosphate binding site [ion binding]; other site 709991001510 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 709991001511 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 709991001512 substrate binding site [chemical binding]; other site 709991001513 dimer interface [polypeptide binding]; other site 709991001514 ATP binding site [chemical binding]; other site 709991001515 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 709991001516 thiamine phosphate binding site [chemical binding]; other site 709991001517 active site 709991001518 pyrophosphate binding site [ion binding]; other site 709991001519 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 709991001520 ThiC-associated domain; Region: ThiC-associated; pfam13667 709991001521 ThiC family; Region: ThiC; cl08031 709991001522 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 709991001523 thiS-thiF/thiG interaction site; other site 709991001524 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991001525 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991001526 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 709991001527 putative substrate translocation pore; other site 709991001528 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 709991001529 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 709991001530 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991001531 ligand binding site [chemical binding]; other site 709991001532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001533 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 709991001534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991001535 Peptidase family U32; Region: Peptidase_U32; cl03113 709991001536 Collagenase; Region: DUF3656; pfam12392 709991001537 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 709991001538 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 709991001539 glutaminase active site [active] 709991001540 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 709991001541 dimer interface [polypeptide binding]; other site 709991001542 active site 709991001543 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 709991001544 dimer interface [polypeptide binding]; other site 709991001545 active site 709991001546 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 709991001547 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 709991001548 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001549 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 709991001550 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 709991001551 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_2; cd04602 709991001552 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 709991001553 active site 709991001554 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 709991001555 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 709991001556 active site 709991001557 motif I; other site 709991001558 motif II; other site 709991001559 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 709991001560 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 709991001561 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 709991001562 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 709991001563 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 709991001564 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 709991001565 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 709991001566 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 709991001567 Bifunctional nuclease; Region: DNase-RNase; cl00553 709991001568 UvrB/uvrC motif; Region: UVR; pfam02151 709991001569 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 709991001570 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 709991001571 active site 709991001572 dimer interface [polypeptide binding]; other site 709991001573 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 709991001574 dimer interface [polypeptide binding]; other site 709991001575 active site 709991001576 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 709991001577 active site 709991001578 ADP/pyrophosphate binding site [chemical binding]; other site 709991001579 dimerization interface [polypeptide binding]; other site 709991001580 allosteric effector site; other site 709991001581 fructose-1,6-bisphosphate binding site; other site 709991001582 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 709991001583 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 709991001584 catalytic Zn binding site [ion binding]; other site 709991001585 NAD(P) binding site [chemical binding]; other site 709991001586 structural Zn binding site [ion binding]; other site 709991001587 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 709991001588 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 709991001589 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 709991001590 active site 709991001591 homodimer interface [polypeptide binding]; other site 709991001592 homotetramer interface [polypeptide binding]; other site 709991001593 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 709991001594 Acetokinase family; Region: Acetate_kinase; cl01029 709991001595 propionate/acetate kinase; Provisional; Region: PRK12379 709991001596 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 709991001597 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 709991001598 PRTRC system protein D; Region: PRTRC_D; TIGR03739 709991001599 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 709991001600 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 709991001601 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 709991001602 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 709991001603 NAD(P) binding site [chemical binding]; other site 709991001604 homotetramer interface [polypeptide binding]; other site 709991001605 homodimer interface [polypeptide binding]; other site 709991001606 active site 709991001607 galactonolactone dehydrogenase; Region: GLDHase; TIGR01676 709991001608 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 709991001609 binding surface 709991001610 Tetratricopeptide repeat; Region: TPR_16; pfam13432 709991001611 TPR motif; other site 709991001612 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 709991001613 Family description; Region: UvrD_C_2; cl15862 709991001614 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 709991001615 Transposase [DNA replication, recombination, and repair]; Region: COG5421 709991001616 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991001617 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001618 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001619 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991001620 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991001621 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991001622 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 709991001623 active site 709991001624 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 709991001625 active site 709991001626 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991001627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001628 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991001629 DNA binding residues [nucleotide binding] 709991001630 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 709991001631 RNA/DNA binding site [nucleotide binding]; other site 709991001632 Protein of unknown function (DUF328); Region: DUF328; cl01143 709991001633 Acetokinase family; Region: Acetate_kinase; cl01029 709991001634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991001635 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; cd00449 709991001636 homodimer interface [polypeptide binding]; other site 709991001637 substrate-cofactor binding pocket; other site 709991001638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991001639 catalytic residue [active] 709991001640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001641 Uncharacterized conserved protein [Function unknown]; Region: COG5495 709991001642 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 709991001643 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 709991001644 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 709991001645 active site 709991001646 motif I; other site 709991001647 motif II; other site 709991001648 UbiA prenyltransferase family; Region: UbiA; cl00337 709991001649 Maf-like protein; Region: Maf; pfam02545 709991001650 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 709991001651 active site 709991001652 dimer interface [polypeptide binding]; other site 709991001653 Peptidase S46; Region: Peptidase_S46; pfam10459 709991001654 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 709991001655 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 709991001656 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 709991001657 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 709991001658 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 709991001659 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991001660 N-terminal plug; other site 709991001661 ligand-binding site [chemical binding]; other site 709991001662 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 709991001663 metal binding site 2 [ion binding]; metal-binding site 709991001664 putative DNA binding helix; other site 709991001665 metal binding site 1 [ion binding]; metal-binding site 709991001666 dimer interface [polypeptide binding]; other site 709991001667 structural Zn2+ binding site [ion binding]; other site 709991001668 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 709991001669 Rubredoxin; Region: Rubredoxin; pfam00301 709991001670 iron binding site [ion binding]; other site 709991001671 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 709991001672 diiron binding motif [ion binding]; other site 709991001673 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 709991001674 catalytic core [active] 709991001675 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 709991001676 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 709991001677 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 709991001678 putative active site; other site 709991001679 catalytic residue [active] 709991001680 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991001681 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991001682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991001683 DNA gyrase subunit A; Validated; Region: PRK05560 709991001684 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 709991001685 CAP-like domain; other site 709991001686 active site 709991001687 primary dimer interface [polypeptide binding]; other site 709991001688 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001689 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001690 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001691 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001692 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001693 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 709991001694 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991001695 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 709991001696 binding surface 709991001697 TPR motif; other site 709991001698 TPR repeat; Region: TPR_11; pfam13414 709991001699 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 709991001700 binding surface 709991001701 TPR motif; other site 709991001702 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 709991001703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001704 short chain dehydrogenase; Provisional; Region: PRK06181 709991001705 NAD(P) binding site [chemical binding]; other site 709991001706 active site 709991001707 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 709991001708 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 709991001709 YceG-like family; Region: YceG; pfam02618 709991001710 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 709991001711 dimerization interface [polypeptide binding]; other site 709991001712 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 709991001713 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 709991001714 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 709991001715 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 709991001716 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 709991001717 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 709991001718 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 709991001719 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 709991001720 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 709991001721 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 709991001722 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 709991001723 FAD binding pocket [chemical binding]; other site 709991001724 FAD binding motif [chemical binding]; other site 709991001725 phosphate binding motif [ion binding]; other site 709991001726 beta-alpha-beta structure motif; other site 709991001727 NAD binding pocket [chemical binding]; other site 709991001728 Iron coordination center [ion binding]; other site 709991001729 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 709991001730 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 709991001731 heterodimer interface [polypeptide binding]; other site 709991001732 active site 709991001733 FMN binding site [chemical binding]; other site 709991001734 homodimer interface [polypeptide binding]; other site 709991001735 substrate binding site [chemical binding]; other site 709991001736 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 709991001737 non-specific DNA binding site [nucleotide binding]; other site 709991001738 salt bridge; other site 709991001739 sequence-specific DNA binding site [nucleotide binding]; other site 709991001740 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 709991001741 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 709991001742 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 709991001743 active site 709991001744 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 709991001745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991001746 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991001747 DNA binding residues [nucleotide binding] 709991001748 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 709991001749 iron-sulfur cluster [ion binding]; other site 709991001750 [2Fe-2S] cluster binding site [ion binding]; other site 709991001751 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 709991001752 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 709991001753 purine monophosphate binding site [chemical binding]; other site 709991001754 dimer interface [polypeptide binding]; other site 709991001755 putative catalytic residues [active] 709991001756 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 709991001757 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 709991001758 rod shape-determining protein MreB; Provisional; Region: PRK13927 709991001759 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 709991001760 ATP binding site [chemical binding]; other site 709991001761 rod shape-determining protein MreC; Provisional; Region: PRK13922 709991001762 rod shape-determining protein MreC; Region: MreC; pfam04085 709991001763 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 709991001764 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 709991001765 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991001766 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 709991001767 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 709991001768 imidazolonepropionase; Validated; Region: PRK09356 709991001769 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 709991001770 active site 709991001771 glutamate formiminotransferase; Region: FtcD; TIGR02024 709991001772 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 709991001773 Formiminotransferase domain; Region: FTCD; pfam02971 709991001774 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 709991001775 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 709991001776 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 709991001777 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 709991001778 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 709991001779 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991001780 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 709991001781 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 709991001782 putative active site [active] 709991001783 putative CoA binding site [chemical binding]; other site 709991001784 nudix motif; other site 709991001785 metal binding site [ion binding]; metal-binding site 709991001786 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 709991001787 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 709991001788 S-adenosylmethionine binding site [chemical binding]; other site 709991001789 Protein of unknown function (DUF452); Region: DUF452; cl01062 709991001790 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 709991001791 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 709991001792 substrate-cofactor binding pocket; other site 709991001793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991001794 catalytic residue [active] 709991001795 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 709991001796 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 709991001797 inhibitor-cofactor binding pocket; inhibition site 709991001798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991001799 catalytic residue [active] 709991001800 biotin synthase; Region: bioB; TIGR00433 709991001801 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 709991001802 FeS/SAM binding site; other site 709991001803 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 709991001804 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 709991001805 Ligand Binding Site [chemical binding]; other site 709991001806 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 709991001807 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 709991001808 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 709991001809 FeS/SAM binding site; other site 709991001810 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 709991001811 ATP binding site [chemical binding]; other site 709991001812 putative Mg++ binding site [ion binding]; other site 709991001813 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 709991001814 nucleotide binding region [chemical binding]; other site 709991001815 ATP-binding site [chemical binding]; other site 709991001816 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 709991001817 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 709991001818 PPIC-type PPIASE domain; Region: Rotamase; cl08278 709991001819 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 709991001820 SurA N-terminal domain; Region: SurA_N_3; cl07813 709991001821 PPIC-type PPIASE domain; Region: Rotamase; cl08278 709991001822 PPIC-type PPIASE domain; Region: Rotamase; cl08278 709991001823 MoxR-like ATPases [General function prediction only]; Region: COG0714 709991001824 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991001825 Walker A motif; other site 709991001826 ATP binding site [chemical binding]; other site 709991001827 Walker B motif; other site 709991001828 arginine finger; other site 709991001829 OstA-like protein; Region: OstA_2; pfam13100 709991001830 OstA-like protein; Region: OstA; cl00844 709991001831 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991001832 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 709991001833 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 709991001834 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 709991001835 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 709991001836 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 709991001837 Potassium binding sites [ion binding]; other site 709991001838 Cesium cation binding sites [ion binding]; other site 709991001839 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 709991001840 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 709991001841 putative active site [active] 709991001842 putative metal binding site [ion binding]; other site 709991001843 Transposase domain (DUF772); Region: DUF772; cl15789 709991001844 Transposase domain (DUF772); Region: DUF772; cl15789 709991001845 Cache domain; Region: Cache_1; pfam02743 709991001846 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 709991001847 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 709991001848 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 709991001849 Sulfatase; Region: Sulfatase; cl10460 709991001850 replicative DNA helicase; Region: DnaB; TIGR00665 709991001851 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 709991001852 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 709991001853 Walker A motif; other site 709991001854 ATP binding site [chemical binding]; other site 709991001855 Walker B motif; other site 709991001856 DNA binding loops [nucleotide binding] 709991001857 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 709991001858 active site 709991001859 catalytic site [active] 709991001860 substrate binding site [chemical binding]; other site 709991001861 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 709991001862 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 709991001863 NAD binding site [chemical binding]; other site 709991001864 homotetramer interface [polypeptide binding]; other site 709991001865 homodimer interface [polypeptide binding]; other site 709991001866 substrate binding site [chemical binding]; other site 709991001867 active site 709991001868 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 709991001869 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 709991001870 Walker A/P-loop; other site 709991001871 ATP binding site [chemical binding]; other site 709991001872 Q-loop/lid; other site 709991001873 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 709991001874 ABC transporter signature motif; other site 709991001875 Walker B; other site 709991001876 D-loop; other site 709991001877 H-loop/switch region; other site 709991001878 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 709991001879 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 709991001880 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 709991001881 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 709991001882 ATP binding site [chemical binding]; other site 709991001883 Mg2+ binding site [ion binding]; other site 709991001884 G-X-G motif; other site 709991001885 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 709991001886 anchoring element; other site 709991001887 dimer interface [polypeptide binding]; other site 709991001888 ATP binding site [chemical binding]; other site 709991001889 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 709991001890 active site 709991001891 putative metal-binding site [ion binding]; other site 709991001892 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 709991001893 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 709991001894 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 709991001895 META domain; Region: META; cl01245 709991001896 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 709991001897 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 709991001898 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 709991001899 FeS/SAM binding site; other site 709991001900 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 709991001901 hypothetical protein; Provisional; Region: PRK00955 709991001902 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 709991001903 TPR repeat; Region: TPR_11; pfam13414 709991001904 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 709991001905 binding surface 709991001906 TPR motif; other site 709991001907 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 709991001908 binding surface 709991001909 TPR repeat; Region: TPR_11; pfam13414 709991001910 TPR motif; other site 709991001911 TPR repeat; Region: TPR_11; pfam13414 709991001912 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 709991001913 binding surface 709991001914 TPR motif; other site 709991001915 TPR repeat; Region: TPR_11; pfam13414 709991001916 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991001917 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991001918 catalytic residues [active] 709991001919 RyR domain; Region: RyR; pfam02026 709991001920 Fic/DOC family; Region: Fic; cl00960 709991001921 TPR repeat; Region: TPR_11; pfam13414 709991001922 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 709991001923 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991001924 ligand binding site [chemical binding]; other site 709991001925 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 709991001926 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 709991001927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001928 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 709991001929 hypothetical protein; Validated; Region: PRK07883 709991001930 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 709991001931 Domain of unknown function DUF59; Region: DUF59; cl00941 709991001932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 709991001933 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 709991001934 Protein of unknown function DUF45; Region: DUF45; cl00636 709991001935 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 709991001936 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 709991001937 substrate binding site [chemical binding]; other site 709991001938 active site 709991001939 catalytic residues [active] 709991001940 heterodimer interface [polypeptide binding]; other site 709991001941 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 709991001942 active site 709991001943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001944 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 709991001945 putative active site [active] 709991001946 putative NTP binding site [chemical binding]; other site 709991001947 putative nucleic acid binding site [nucleotide binding]; other site 709991001948 Protein of unknown function (DUF904); Region: DUF904; cl11531 709991001949 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; cl02712 709991001950 amidase catalytic site [active] 709991001951 Zn binding residues [ion binding]; other site 709991001952 substrate binding site [chemical binding]; other site 709991001953 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 709991001954 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 709991001955 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 709991001956 Protein of unknown function (DUF935); Region: DUF935; pfam06074 709991001957 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 709991001958 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 709991001959 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 709991001960 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 709991001961 chaperone protein DnaJ; Provisional; Region: PRK14289 709991001962 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 709991001963 G1 box; other site 709991001964 GTP/Mg2+ binding site [chemical binding]; other site 709991001965 G2 box; other site 709991001966 Switch I region; other site 709991001967 G3 box; other site 709991001968 Switch II region; other site 709991001969 G4 box; other site 709991001970 TIR domain; Region: TIR_2; cl15770 709991001971 AAA domain; Region: AAA_22; pfam13401 709991001972 Integrase core domain; Region: rve; cl01316 709991001973 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 709991001974 active site 709991001975 ribulose/triose binding site [chemical binding]; other site 709991001976 phosphate binding site [ion binding]; other site 709991001977 substrate (anthranilate) binding pocket [chemical binding]; other site 709991001978 product (indole) binding pocket [chemical binding]; other site 709991001979 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 709991001980 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 709991001981 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 709991001982 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 709991001983 Glutamine amidotransferase class-I; Region: GATase; pfam00117 709991001984 glutamine binding [chemical binding]; other site 709991001985 catalytic triad [active] 709991001986 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 709991001987 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 709991001988 chorismate binding enzyme; Region: Chorismate_bind; cl10555 709991001989 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 709991001990 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 709991001991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991001992 catalytic residue [active] 709991001993 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 709991001994 Tetramer interface [polypeptide binding]; other site 709991001995 active site 709991001996 FMN-binding site [chemical binding]; other site 709991001997 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 709991001998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991001999 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 709991002000 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 709991002001 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 709991002002 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 709991002003 dimerization interface [polypeptide binding]; other site 709991002004 active site 709991002005 Quinolinate synthetase A protein; Region: NadA; cl00420 709991002006 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 709991002007 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 709991002008 putative tRNA-binding site [nucleotide binding]; other site 709991002009 B3/4 domain; Region: B3_4; cl11458 709991002010 tRNA synthetase B5 domain; Region: B5; cl08394 709991002011 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 709991002012 dimer interface [polypeptide binding]; other site 709991002013 motif 1; other site 709991002014 motif 3; other site 709991002015 motif 2; other site 709991002016 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 709991002017 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 709991002018 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 709991002019 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 709991002020 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 709991002021 Domain of Unknown Function with PDB structure (DUF3858); Region: DUF3858; pfam12970 709991002022 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991002023 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991002024 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 709991002025 Walker A/P-loop; other site 709991002026 ATP binding site [chemical binding]; other site 709991002027 Q-loop/lid; other site 709991002028 ABC transporter signature motif; other site 709991002029 Walker B; other site 709991002030 D-loop; other site 709991002031 H-loop/switch region; other site 709991002032 Leucine carboxyl methyltransferase; Region: LCM; cl01306 709991002033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991002034 Helix-turn-helix domains; Region: HTH; cl00088 709991002035 hypothetical protein; Provisional; Region: PRK14851 709991002036 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 709991002037 dimer interface [polypeptide binding]; other site 709991002038 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991002039 Helix-turn-helix domains; Region: HTH; cl00088 709991002040 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 709991002041 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 709991002042 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 709991002043 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 709991002044 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 709991002045 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 709991002046 GAF domain; Region: GAF; cl15785 709991002047 PAS fold; Region: PAS_3; pfam08447 709991002048 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991002049 dimer interface [polypeptide binding]; other site 709991002050 phosphorylation site [posttranslational modification] 709991002051 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 709991002052 ATP binding site [chemical binding]; other site 709991002053 Mg2+ binding site [ion binding]; other site 709991002054 G-X-G motif; other site 709991002055 PAP2_like_4 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_4; cd03395 709991002056 active site 709991002057 lipoyl synthase; Provisional; Region: PRK05481 709991002058 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 709991002059 FeS/SAM binding site; other site 709991002060 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 709991002061 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 709991002062 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 709991002063 minor groove reading motif; other site 709991002064 helix-hairpin-helix signature motif; other site 709991002065 substrate binding pocket [chemical binding]; other site 709991002066 active site 709991002067 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 709991002068 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 709991002069 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 709991002070 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 709991002071 synthetase active site [active] 709991002072 NTP binding site [chemical binding]; other site 709991002073 metal binding site [ion binding]; metal-binding site 709991002074 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 709991002075 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 709991002076 Sporulation related domain; Region: SPOR; cl10051 709991002077 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 709991002078 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 709991002079 structural tetrad; other site 709991002080 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 709991002081 transketolase; Reviewed; Region: PRK05899 709991002082 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 709991002083 TPP-binding site [chemical binding]; other site 709991002084 dimer interface [polypeptide binding]; other site 709991002085 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 709991002086 PYR/PP interface [polypeptide binding]; other site 709991002087 dimer interface [polypeptide binding]; other site 709991002088 TPP binding site [chemical binding]; other site 709991002089 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 709991002090 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002091 SusD family; Region: SusD; pfam07980 709991002092 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 709991002093 stage V sporulation protein K; Region: spore_V_K; TIGR02881 709991002094 stage V sporulation protein K; Region: spore_V_K; TIGR02881 709991002095 Helix-turn-helix domains; Region: HTH; cl00088 709991002096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 709991002097 Integrase core domain; Region: rve; cl01316 709991002098 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 709991002099 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991002100 Walker A motif; other site 709991002101 ATP binding site [chemical binding]; other site 709991002102 Walker B motif; other site 709991002103 arginine finger; other site 709991002104 Transposase domain (DUF772); Region: DUF772; cl15789 709991002105 Transposase domain (DUF772); Region: DUF772; cl15789 709991002106 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 709991002107 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991002108 EamA-like transporter family; Region: EamA; cl01037 709991002109 EamA-like transporter family; Region: EamA; cl01037 709991002110 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 709991002111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 709991002112 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 709991002113 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 709991002114 active site residue [active] 709991002115 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 709991002116 CPxP motif; other site 709991002117 DsrE/DsrF-like family; Region: DrsE; cl00672 709991002118 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 709991002119 catalytic residues [active] 709991002120 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 709991002121 dimerization interface [polypeptide binding]; other site 709991002122 putative DNA binding site [nucleotide binding]; other site 709991002123 putative Zn2+ binding site [ion binding]; other site 709991002124 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 709991002125 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 709991002126 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 709991002127 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 709991002128 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 709991002129 active site 709991002130 Zn binding site [ion binding]; other site 709991002131 adenylate kinase; Reviewed; Region: adk; PRK00279 709991002132 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 709991002133 AMP-binding site [chemical binding]; other site 709991002134 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 709991002135 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991002136 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991002137 ligand binding site [chemical binding]; other site 709991002138 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 709991002139 Transglycosylase; Region: Transgly; cl07896 709991002140 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991002141 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 709991002142 ZIP Zinc transporter; Region: Zip; pfam02535 709991002143 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 709991002144 ApbE family; Region: ApbE; cl00643 709991002145 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 709991002146 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 709991002147 active site 709991002148 nucleophile elbow; other site 709991002149 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 709991002150 Surface antigen; Region: Bac_surface_Ag; cl03097 709991002151 Response regulator receiver domain; Region: Response_reg; pfam00072 709991002152 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 709991002153 active site 709991002154 phosphorylation site [posttranslational modification] 709991002155 intermolecular recognition site; other site 709991002156 dimerization interface [polypeptide binding]; other site 709991002157 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 709991002158 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991002159 Walker A motif; other site 709991002160 ATP binding site [chemical binding]; other site 709991002161 Walker B motif; other site 709991002162 arginine finger; other site 709991002163 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 709991002164 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 709991002165 G1 box; other site 709991002166 GTP/Mg2+ binding site [chemical binding]; other site 709991002167 Switch I region; other site 709991002168 G2 box; other site 709991002169 Switch II region; other site 709991002170 G3 box; other site 709991002171 G4 box; other site 709991002172 Uncharacterized conserved protein [Function unknown]; Region: COG1284 709991002173 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 709991002174 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 709991002175 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 709991002176 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991002177 Helix-turn-helix domains; Region: HTH; cl00088 709991002178 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 709991002179 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 709991002180 dimer interface [polypeptide binding]; other site 709991002181 active site 709991002182 CoA binding pocket [chemical binding]; other site 709991002183 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 709991002184 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002185 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002186 natural product precursor, GG-Bacteroidales family; Region: GG_sam_targ_CFB; TIGR04149 709991002187 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 709991002188 radical SAM peptide maturase, GG-Bacteroidales family; Region: GG_samocin_CFB; TIGR04148 709991002189 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 709991002190 FeS/SAM binding site; other site 709991002191 quasi-rSAM protein, GG-Bacteroidales system; Region: quasi_rSAM; TIGR04150 709991002192 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 709991002193 DDE superfamily endonuclease; Region: DDE_5; cl02413 709991002194 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 709991002195 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 709991002196 putative active site [active] 709991002197 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991002198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991002199 Walker A/P-loop; other site 709991002200 ATP binding site [chemical binding]; other site 709991002201 Q-loop/lid; other site 709991002202 ABC transporter signature motif; other site 709991002203 Walker B; other site 709991002204 D-loop; other site 709991002205 H-loop/switch region; other site 709991002206 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002207 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002208 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002209 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002210 FecR protein; Region: FecR; pfam04773 709991002211 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002212 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 709991002213 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 709991002214 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 709991002215 binding surface 709991002216 TPR motif; other site 709991002217 TIR domain; Region: TIR_2; cl15770 709991002218 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991002219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991002220 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991002221 DNA binding residues [nucleotide binding] 709991002222 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 709991002223 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 709991002224 dimer interface [polypeptide binding]; other site 709991002225 active site residues [active] 709991002226 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 709991002227 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 709991002228 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 709991002229 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 709991002230 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 709991002231 adenylosuccinate lyase; Provisional; Region: PRK09285 709991002232 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 709991002233 tetramer interface [polypeptide binding]; other site 709991002234 active site 709991002235 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991002236 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991002237 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 709991002238 Walker A/P-loop; other site 709991002239 ATP binding site [chemical binding]; other site 709991002240 Q-loop/lid; other site 709991002241 ABC transporter signature motif; other site 709991002242 Walker B; other site 709991002243 D-loop; other site 709991002244 H-loop/switch region; other site 709991002245 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 709991002246 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 709991002247 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 709991002248 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 709991002249 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 709991002250 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 709991002251 protein binding site [polypeptide binding]; other site 709991002252 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 709991002253 Catalytic dyad [active] 709991002254 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 709991002255 active site 709991002256 metal binding site [ion binding]; metal-binding site 709991002257 homotetramer interface [polypeptide binding]; other site 709991002258 endonuclease IV; Provisional; Region: PRK01060 709991002259 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 709991002260 AP (apurinic/apyrimidinic) site pocket; other site 709991002261 DNA interaction; other site 709991002262 Metal-binding active site; metal-binding site 709991002263 heat shock protein 90; Provisional; Region: PRK05218 709991002264 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 709991002265 ATP binding site [chemical binding]; other site 709991002266 Mg2+ binding site [ion binding]; other site 709991002267 G-X-G motif; other site 709991002268 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 709991002269 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 709991002270 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 709991002271 substrate binding site [chemical binding]; other site 709991002272 ligand binding site [chemical binding]; other site 709991002273 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 709991002274 substrate binding site [chemical binding]; other site 709991002275 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 709991002276 active site 709991002277 catalytic residues [active] 709991002278 metal binding site [ion binding]; metal-binding site 709991002279 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 709991002280 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991002281 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991002282 ABC transporter; Region: ABC_tran_2; pfam12848 709991002283 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991002284 LytTr DNA-binding domain; Region: LytTR; cl04498 709991002285 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991002286 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991002287 Propeptide_C25; Region: Propeptide_C25; pfam08126 709991002288 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 709991002289 active site 709991002290 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 709991002291 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 709991002292 NAD binding site [chemical binding]; other site 709991002293 substrate binding site [chemical binding]; other site 709991002294 homodimer interface [polypeptide binding]; other site 709991002295 active site 709991002296 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 709991002297 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 709991002298 NADP binding site [chemical binding]; other site 709991002299 active site 709991002300 putative substrate binding site [chemical binding]; other site 709991002301 Cupin domain; Region: Cupin_2; cl09118 709991002302 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 709991002303 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 709991002304 substrate binding site; other site 709991002305 tetramer interface; other site 709991002306 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 709991002307 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 709991002308 Mg++ binding site [ion binding]; other site 709991002309 putative catalytic motif [active] 709991002310 substrate binding site [chemical binding]; other site 709991002311 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 709991002312 NAD(P) binding site [chemical binding]; other site 709991002313 homodimer interface [polypeptide binding]; other site 709991002314 substrate binding site [chemical binding]; other site 709991002315 active site 709991002316 Bacterial sugar transferase; Region: Bac_transf; cl00939 709991002317 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991002318 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991002319 inhibitor-cofactor binding pocket; inhibition site 709991002320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991002321 catalytic residue [active] 709991002322 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 709991002323 active site 709991002324 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 709991002325 homodimer interface [polypeptide binding]; other site 709991002326 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 709991002327 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 709991002328 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 709991002329 motif II; other site 709991002330 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 709991002331 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991002332 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 709991002333 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 709991002334 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 709991002335 potential frameshift: common BLAST hit: gi|150006492|ref|YP_001301236.1| transposase 709991002336 Transposase domain (DUF772); Region: DUF772; cl15789 709991002337 Transposase domain (DUF772); Region: DUF772; cl15789 709991002338 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 709991002339 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 709991002340 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 709991002341 Ligand Binding Site [chemical binding]; other site 709991002342 Molecular Tunnel; other site 709991002343 MatE; Region: MatE; cl10513 709991002344 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 709991002345 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 709991002346 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 709991002347 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991002348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002349 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 709991002350 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 709991002351 putative trimer interface [polypeptide binding]; other site 709991002352 putative active site [active] 709991002353 putative substrate binding site [chemical binding]; other site 709991002354 putative CoA binding site [chemical binding]; other site 709991002355 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 709991002356 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991002357 inhibitor-cofactor binding pocket; inhibition site 709991002358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991002359 catalytic residue [active] 709991002360 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 709991002361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002362 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 709991002363 Helix-turn-helix domains; Region: HTH; cl00088 709991002364 dimerization interface [polypeptide binding]; other site 709991002365 putative DNA binding site [nucleotide binding]; other site 709991002366 putative Zn2+ binding site [ion binding]; other site 709991002367 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 709991002368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002369 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991002370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002371 MatE; Region: MatE; cl10513 709991002372 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991002373 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991002374 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 709991002375 active site 709991002376 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 709991002377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 709991002378 Phosphopantetheine attachment site; Region: PP-binding; cl09936 709991002379 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 709991002380 classical (c) SDRs; Region: SDR_c; cd05233 709991002381 NAD(P) binding site [chemical binding]; other site 709991002382 active site 709991002383 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 709991002384 classical (c) SDRs; Region: SDR_c; cd05233 709991002385 NAD(P) binding site [chemical binding]; other site 709991002386 active site 709991002387 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 709991002388 AMP-binding enzyme; Region: AMP-binding; cl15778 709991002389 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 709991002390 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 709991002391 dimer interface [polypeptide binding]; other site 709991002392 active site 709991002393 CoA binding pocket [chemical binding]; other site 709991002394 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991002395 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991002396 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991002397 inhibitor-cofactor binding pocket; inhibition site 709991002398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991002399 catalytic residue [active] 709991002400 Bacterial sugar transferase; Region: Bac_transf; cl00939 709991002401 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 709991002402 NAD(P) binding site [chemical binding]; other site 709991002403 homodimer interface [polypeptide binding]; other site 709991002404 substrate binding site [chemical binding]; other site 709991002405 active site 709991002406 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 709991002407 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 709991002408 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 709991002409 SLBB domain; Region: SLBB; pfam10531 709991002410 SLBB domain; Region: SLBB; pfam10531 709991002411 polysaccharide export protein Wza; Provisional; Region: PRK15078 709991002412 SLBB domain; Region: SLBB; pfam10531 709991002413 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 709991002414 SLBB domain; Region: SLBB; pfam10531 709991002415 Transcription antiterminator [Transcription]; Region: NusG; COG0250 709991002416 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 709991002417 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 709991002418 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 709991002419 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 709991002420 active site 709991002421 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 709991002422 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 709991002423 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 709991002424 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 709991002425 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991002426 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 709991002427 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 709991002428 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 709991002429 metal binding site [ion binding]; metal-binding site 709991002430 dimer interface [polypeptide binding]; other site 709991002431 o-succinylbenzoate-CoA ligase; Region: PLN02860 709991002432 AMP-binding enzyme; Region: AMP-binding; cl15778 709991002433 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 709991002434 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 709991002435 CutC family; Region: CutC; cl01218 709991002436 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 709991002437 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 709991002438 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 709991002439 FMN binding site [chemical binding]; other site 709991002440 dimer interface [polypeptide binding]; other site 709991002441 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 709991002442 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 709991002443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991002444 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 709991002445 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 709991002446 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 709991002447 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 709991002448 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991002449 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 709991002450 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 709991002451 active site 709991002452 DNA binding site [nucleotide binding] 709991002453 Int/Topo IB signature motif; other site 709991002454 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 709991002455 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 709991002456 Cation efflux family; Region: Cation_efflux; cl00316 709991002457 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 709991002458 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 709991002459 Cl- selectivity filter; other site 709991002460 Cl- binding residues [ion binding]; other site 709991002461 pore gating glutamate residue; other site 709991002462 dimer interface [polypeptide binding]; other site 709991002463 FOG: CBS domain [General function prediction only]; Region: COG0517 709991002464 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 709991002465 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 709991002466 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 709991002467 putative substrate binding site [chemical binding]; other site 709991002468 putative ATP binding site [chemical binding]; other site 709991002469 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 709991002470 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 709991002471 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 709991002472 putative substrate translocation pore; other site 709991002473 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 709991002474 Transposase domain (DUF772); Region: DUF772; cl15789 709991002475 Transposase domain (DUF772); Region: DUF772; cl15789 709991002476 Domain of unknown function (DUF4374); Region: DUF4374; pfam14298 709991002477 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002478 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991002479 N-terminal plug; other site 709991002480 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 709991002481 ligand-binding site [chemical binding]; other site 709991002482 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991002483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002485 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991002486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002487 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002488 SusD family; Region: SusD; pfam07980 709991002489 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002490 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002491 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002492 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002493 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002494 FecR protein; Region: FecR; pfam04773 709991002495 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991002496 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991002497 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991002498 DNA binding residues [nucleotide binding] 709991002499 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991002500 catalytic residues [active] 709991002501 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 709991002502 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002503 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002504 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002505 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002506 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002507 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002508 FecR protein; Region: FecR; pfam04773 709991002509 fec operon regulator FecR; Reviewed; Region: PRK09774 709991002510 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991002511 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991002512 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991002513 DNA binding residues [nucleotide binding] 709991002514 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 709991002515 Protein of unknown function (DUF421); Region: DUF421; cl00990 709991002516 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 709991002517 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991002518 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991002519 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991002520 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991002521 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991002522 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991002523 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 709991002524 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 709991002525 active site 709991002526 catalytic site [active] 709991002527 substrate binding site [chemical binding]; other site 709991002528 DNA polymerase III subunit beta; Validated; Region: PRK05643 709991002529 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 709991002530 putative DNA binding surface [nucleotide binding]; other site 709991002531 dimer interface [polypeptide binding]; other site 709991002532 beta-clamp/translesion DNA polymerase binding surface; other site 709991002533 beta-clamp/clamp loader binding surface; other site 709991002534 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 709991002535 proline aminopeptidase P II; Provisional; Region: PRK10879 709991002536 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 709991002537 active site 709991002538 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 709991002539 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 709991002540 dimer interface [polypeptide binding]; other site 709991002541 substrate binding site [chemical binding]; other site 709991002542 metal binding site [ion binding]; metal-binding site 709991002543 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 709991002544 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991002545 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991002546 pyruvate carboxylase subunit B; Validated; Region: PRK09282 709991002547 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 709991002548 carboxyltransferase (CT) interaction site; other site 709991002549 biotinylation site [posttranslational modification]; other site 709991002550 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 709991002551 Protein of unknown function, DUF488; Region: DUF488; cl01246 709991002552 peptidase T; Region: peptidase-T; TIGR01882 709991002553 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 709991002554 metal binding site [ion binding]; metal-binding site 709991002555 dimer interface [polypeptide binding]; other site 709991002556 OPT oligopeptide transporter protein; Region: OPT; cl14607 709991002557 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 709991002558 metal ion-dependent adhesion site (MIDAS); other site 709991002559 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991002560 Walker A motif; other site 709991002561 ATP binding site [chemical binding]; other site 709991002562 Walker B motif; other site 709991002563 arginine finger; other site 709991002564 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 709991002565 H+ Antiporter protein; Region: 2A0121; TIGR00900 709991002566 putative substrate translocation pore; other site 709991002567 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 709991002568 dimer interface [polypeptide binding]; other site 709991002569 FMN binding site [chemical binding]; other site 709991002570 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 709991002571 putative FMN binding site [chemical binding]; other site 709991002572 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991002573 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 709991002574 ADP binding site [chemical binding]; other site 709991002575 magnesium binding site [ion binding]; other site 709991002576 putative shikimate binding site; other site 709991002577 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 709991002578 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 709991002579 CAP-like domain; other site 709991002580 active site 709991002581 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 709991002582 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 709991002583 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 709991002584 ATP binding site [chemical binding]; other site 709991002585 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 709991002586 active site 709991002587 metal binding site [ion binding]; metal-binding site 709991002588 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 709991002589 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 709991002590 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 709991002591 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 709991002592 TPR repeat; Region: TPR_11; pfam13414 709991002593 binding surface 709991002594 TPR motif; other site 709991002595 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 709991002596 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991002597 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991002598 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991002599 ligand binding site [chemical binding]; other site 709991002600 Rubrerythrin [Energy production and conversion]; Region: COG1592 709991002601 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 709991002602 binuclear metal center [ion binding]; other site 709991002603 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 709991002604 iron binding site [ion binding]; other site 709991002605 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 709991002606 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 709991002607 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 709991002608 binding surface 709991002609 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991002610 TPR motif; other site 709991002611 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 709991002612 binding surface 709991002613 TPR motif; other site 709991002614 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991002615 putative acyl-acceptor binding pocket; other site 709991002616 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991002617 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 709991002618 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991002619 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991002620 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 709991002621 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 709991002622 putative substrate translocation pore; other site 709991002623 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991002624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002625 Helix-turn-helix domains; Region: HTH; cl00088 709991002626 intracellular protease, PfpI family; Region: PfpI; TIGR01382 709991002627 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 709991002628 conserved cys residue [active] 709991002629 Thiamine pyrophosphokinase; Region: TPK; cd07995 709991002630 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 709991002631 active site 709991002632 dimerization interface [polypeptide binding]; other site 709991002633 thiamine binding site [chemical binding]; other site 709991002634 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 709991002635 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 709991002636 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 709991002637 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 709991002638 MatE; Region: MatE; cl10513 709991002639 MatE; Region: MatE; cl10513 709991002640 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 709991002641 ligand binding site [chemical binding]; other site 709991002642 flexible hinge region; other site 709991002643 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 709991002644 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 709991002645 ligand binding site [chemical binding]; other site 709991002646 flexible hinge region; other site 709991002647 Helix-turn-helix domains; Region: HTH; cl00088 709991002648 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 709991002649 4Fe-4S binding domain; Region: Fer4; cl02805 709991002650 hybrid cluster protein; Provisional; Region: PRK05290 709991002651 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 709991002652 ACS interaction site; other site 709991002653 CODH interaction site; other site 709991002654 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 709991002655 hybrid metal cluster; other site 709991002656 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 709991002657 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 709991002658 substrate binding pocket [chemical binding]; other site 709991002659 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 709991002660 TIGR04076 family protein; Region: TIGR04076 709991002661 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; cl15754 709991002662 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991002663 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991002664 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 709991002665 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 709991002666 active site 709991002667 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_15; cd04673 709991002668 nudix motif; other site 709991002669 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 709991002670 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991002671 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991002672 catalytic residues [active] 709991002673 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991002674 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002675 SusD family; Region: SusD; pfam07980 709991002676 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002677 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002678 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002679 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002680 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002681 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002682 FecR protein; Region: FecR; pfam04773 709991002683 Protein of unknown function (DUF419); Region: DUF419; cl15265 709991002684 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991002685 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991002686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002687 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 709991002688 amphipathic channel; other site 709991002689 Asn-Pro-Ala signature motifs; other site 709991002690 peptidase T; Region: peptidase-T; TIGR01882 709991002691 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 709991002692 metal binding site [ion binding]; metal-binding site 709991002693 dimer interface [polypeptide binding]; other site 709991002694 prolyl-tRNA synthetase; Provisional; Region: PRK08661 709991002695 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 709991002696 dimer interface [polypeptide binding]; other site 709991002697 motif 1; other site 709991002698 active site 709991002699 motif 2; other site 709991002700 motif 3; other site 709991002701 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 709991002702 anticodon binding site; other site 709991002703 zinc-binding site [ion binding]; other site 709991002704 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991002705 Predicted permeases [General function prediction only]; Region: RarD; COG2962 709991002706 EamA-like transporter family; Region: EamA; cl01037 709991002707 EamA-like transporter family; Region: EamA; cl01037 709991002708 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 709991002709 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 709991002710 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 709991002711 FeS/SAM binding site; other site 709991002712 TRAM domain; Region: TRAM; cl01282 709991002713 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 709991002714 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 709991002715 dihydropteroate synthase; Region: DHPS; TIGR01496 709991002716 substrate binding pocket [chemical binding]; other site 709991002717 dimer interface [polypeptide binding]; other site 709991002718 inhibitor binding site; inhibition site 709991002719 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 709991002720 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 709991002721 DoxX; Region: DoxX; cl00976 709991002722 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 709991002723 substrate binding site [chemical binding]; other site 709991002724 dimer interface [polypeptide binding]; other site 709991002725 catalytic triad [active] 709991002726 Peptidase family M49; Region: Peptidase_M49; pfam03571 709991002727 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 709991002728 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 709991002729 dimer interface [polypeptide binding]; other site 709991002730 ADP-ribose binding site [chemical binding]; other site 709991002731 active site 709991002732 nudix motif; other site 709991002733 metal binding site [ion binding]; metal-binding site 709991002734 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 709991002735 IHF dimer interface [polypeptide binding]; other site 709991002736 IHF - DNA interface [nucleotide binding]; other site 709991002737 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 709991002738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002739 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991002740 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 709991002741 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 709991002742 putative NAD(P) binding site [chemical binding]; other site 709991002743 homodimer interface [polypeptide binding]; other site 709991002744 homotetramer interface [polypeptide binding]; other site 709991002745 active site 709991002746 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 709991002747 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991002748 Walker A motif; other site 709991002749 ATP binding site [chemical binding]; other site 709991002750 Walker B motif; other site 709991002751 arginine finger; other site 709991002752 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 709991002753 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991002754 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002755 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991002756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991002757 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 709991002758 amidase catalytic site [active] 709991002759 Zn binding residues [ion binding]; other site 709991002760 substrate binding site [chemical binding]; other site 709991002761 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 709991002762 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 709991002763 Clostripain family; Region: Peptidase_C11; cl04055 709991002764 DNA helicase IV; Provisional; Region: helD; PRK11054 709991002765 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 709991002766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991002767 DNA helicase IV; Provisional; Region: helD; PRK11054 709991002768 Family description; Region: UvrD_C_2; cl15862 709991002769 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002770 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002771 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002772 FecR protein; Region: FecR; pfam04773 709991002773 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002774 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991002775 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991002776 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991002777 DNA binding residues [nucleotide binding] 709991002778 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002779 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002780 FecR protein; Region: FecR; pfam04773 709991002781 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991002782 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002783 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002784 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002785 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002786 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991002787 Transposase domain (DUF772); Region: DUF772; cl15789 709991002788 Transposase domain (DUF772); Region: DUF772; cl15789 709991002789 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 709991002790 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991002791 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002792 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991002793 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991002794 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002795 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991002796 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002797 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991002798 FecR protein; Region: FecR; pfam04773 709991002799 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991002800 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991002801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991002802 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 709991002803 binding surface 709991002804 Tetratricopeptide repeat; Region: TPR_16; pfam13432 709991002805 TPR motif; other site 709991002806 Bacterial SH3 domain; Region: SH3_3; cl02551 709991002807 Oxygen tolerance; Region: BatD; pfam13584 709991002808 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 709991002809 binding surface 709991002810 TPR motif; other site 709991002811 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991002812 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 709991002813 metal ion-dependent adhesion site (MIDAS); other site 709991002814 Aerotolerance regulator N-terminal; Region: BatA; cl06567 709991002815 hypothetical protein; Provisional; Region: PRK13685 709991002816 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 709991002817 metal ion-dependent adhesion site (MIDAS); other site 709991002818 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 709991002819 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 709991002820 metal ion-dependent adhesion site (MIDAS); other site 709991002821 MoxR-like ATPases [General function prediction only]; Region: COG0714 709991002822 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991002823 Walker A motif; other site 709991002824 ATP binding site [chemical binding]; other site 709991002825 Walker B motif; other site 709991002826 arginine finger; other site 709991002827 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 709991002828 DNA-binding site [nucleotide binding]; DNA binding site 709991002829 RNA-binding motif; other site 709991002830 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 709991002831 DEAD-like helicases superfamily; Region: DEXDc; smart00487 709991002832 ATP binding site [chemical binding]; other site 709991002833 Mg++ binding site [ion binding]; other site 709991002834 motif III; other site 709991002835 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 709991002836 nucleotide binding region [chemical binding]; other site 709991002837 ATP-binding site [chemical binding]; other site 709991002838 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 709991002839 RNA/DNA binding site [nucleotide binding]; other site 709991002840 RRM dimerization site [polypeptide binding]; other site 709991002841 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 709991002842 Ferritin-like domain; Region: Ferritin; pfam00210 709991002843 diiron binding motif [ion binding]; other site 709991002844 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 709991002845 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 709991002846 active site 709991002847 catalytic site [active] 709991002848 metal binding site [ion binding]; metal-binding site 709991002849 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 709991002850 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 709991002851 putative dimer interface [polypeptide binding]; other site 709991002852 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 709991002853 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991002854 DNA binding residues [nucleotide binding] 709991002855 dimerization interface [polypeptide binding]; other site 709991002856 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 709991002857 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991002858 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991002859 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 709991002860 active site 709991002861 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 709991002862 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 709991002863 Coenzyme A binding pocket [chemical binding]; other site 709991002864 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 709991002865 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 709991002866 S-adenosylmethionine binding site [chemical binding]; other site 709991002867 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 709991002868 alanine--tRNA ligase; Region: alaS; TIGR00344 709991002869 phosphodiesterase; Provisional; Region: PRK12704 709991002870 CHC2 zinc finger; Region: zf-CHC2; cl15369 709991002871 DNA primase; Validated; Region: dnaG; PRK05667 709991002872 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 709991002873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991002874 Walker B motif; other site 709991002875 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991002876 Transposase domain (DUF772); Region: DUF772; cl15789 709991002877 Transposase domain (DUF772); Region: DUF772; cl15789 709991002878 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 709991002879 putative active site [active] 709991002880 putative NTP binding site [chemical binding]; other site 709991002881 putative nucleic acid binding site [nucleotide binding]; other site 709991002882 Type II intron maturase; Region: Intron_maturas2; pfam01348 709991002883 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 709991002884 Membrane transport protein; Region: Mem_trans; cl09117 709991002885 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 709991002886 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 709991002887 active site 709991002888 amidophosphoribosyltransferase; Region: purF; TIGR01134 709991002889 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 709991002890 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 709991002891 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 709991002892 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 709991002893 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 709991002894 Active Sites [active] 709991002895 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 709991002896 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 709991002897 Walker A/P-loop; other site 709991002898 ATP binding site [chemical binding]; other site 709991002899 Q-loop/lid; other site 709991002900 ABC transporter signature motif; other site 709991002901 Walker B; other site 709991002902 D-loop; other site 709991002903 H-loop/switch region; other site 709991002904 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 709991002905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 709991002906 dimer interface [polypeptide binding]; other site 709991002907 conserved gate region; other site 709991002908 putative PBP binding loops; other site 709991002909 ABC-ATPase subunit interface; other site 709991002910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 709991002911 dimer interface [polypeptide binding]; other site 709991002912 conserved gate region; other site 709991002913 putative PBP binding loops; other site 709991002914 ABC-ATPase subunit interface; other site 709991002915 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 709991002916 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 709991002917 Rubredoxin; Region: Rubredoxin; pfam00301 709991002918 iron binding site [ion binding]; other site 709991002919 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991002920 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 709991002921 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002922 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991002923 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991002924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991002925 TIGR01777 family protein; Region: yfcH 709991002926 NAD(P) binding site [chemical binding]; other site 709991002927 active site 709991002928 Peptidase family M48; Region: Peptidase_M48; cl12018 709991002929 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 709991002930 ligand binding site [chemical binding]; other site 709991002931 active site 709991002932 UGI interface [polypeptide binding]; other site 709991002933 catalytic site [active] 709991002934 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 709991002935 FAD binding domain; Region: FAD_binding_4; pfam01565 709991002936 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 709991002937 MFS transport protein AraJ; Provisional; Region: PRK10091 709991002938 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 709991002939 putative substrate translocation pore; other site 709991002940 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 709991002941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 709991002942 putative metal binding site [ion binding]; other site 709991002943 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991002944 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 709991002945 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 709991002946 active site 709991002947 metal binding site [ion binding]; metal-binding site 709991002948 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 709991002949 Flavin Reductases; Region: FlaRed; cl00801 709991002950 CrcB-like protein; Region: CRCB; cl09114 709991002951 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 709991002952 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 709991002953 putative substrate translocation pore; other site 709991002954 Urea transporter; Region: UT; cl01829 709991002955 UreD urease accessory protein; Region: UreD; cl00530 709991002956 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 709991002957 G1 box; other site 709991002958 GTP/Mg2+ binding site [chemical binding]; other site 709991002959 G2 box; other site 709991002960 Switch I region; other site 709991002961 Switch II region; other site 709991002962 G4 box; other site 709991002963 G5 box; other site 709991002964 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 709991002965 UreF; Region: UreF; pfam01730 709991002966 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 709991002967 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 709991002968 dimer interface [polypeptide binding]; other site 709991002969 catalytic residues [active] 709991002970 urease subunit alpha; Reviewed; Region: ureC; PRK13207 709991002971 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 709991002972 subunit interactions [polypeptide binding]; other site 709991002973 active site 709991002974 flap region; other site 709991002975 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 709991002976 alpha-beta subunit interface [polypeptide binding]; other site 709991002977 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 709991002978 alpha-gamma subunit interface [polypeptide binding]; other site 709991002979 beta-gamma subunit interface [polypeptide binding]; other site 709991002980 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 709991002981 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991002982 N-terminal plug; other site 709991002983 ligand-binding site [chemical binding]; other site 709991002984 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 709991002985 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 709991002986 putative metal binding site [ion binding]; other site 709991002987 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 709991002988 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991002989 ABC-ATPase subunit interface; other site 709991002990 dimer interface [polypeptide binding]; other site 709991002991 putative PBP binding regions; other site 709991002992 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 709991002993 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 709991002994 Walker A/P-loop; other site 709991002995 ATP binding site [chemical binding]; other site 709991002996 Q-loop/lid; other site 709991002997 ABC transporter signature motif; other site 709991002998 Walker B; other site 709991002999 D-loop; other site 709991003000 H-loop/switch region; other site 709991003001 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 709991003002 homodimer interaction site [polypeptide binding]; other site 709991003003 cofactor binding site; other site 709991003004 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 709991003005 Helix-turn-helix domains; Region: HTH; cl00088 709991003006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 709991003007 Integrase core domain; Region: rve; cl01316 709991003008 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 709991003009 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991003010 Walker A motif; other site 709991003011 ATP binding site [chemical binding]; other site 709991003012 Walker B motif; other site 709991003013 arginine finger; other site 709991003014 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 709991003015 additional DNA contacts [nucleotide binding]; other site 709991003016 mismatch recognition site; other site 709991003017 active site 709991003018 zinc binding site [ion binding]; other site 709991003019 DNA intercalation site [nucleotide binding]; other site 709991003020 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 709991003021 Protein of unknown function (DUF524); Region: DUF524; pfam04411 709991003022 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 709991003023 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 709991003024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003025 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 709991003026 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 709991003027 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 709991003028 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 709991003029 ATP binding site [chemical binding]; other site 709991003030 Mg2+ binding site [ion binding]; other site 709991003031 G-X-G motif; other site 709991003032 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 709991003033 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; cl15754 709991003034 cofactor binding site; other site 709991003035 DNA binding site [nucleotide binding] 709991003036 substrate interaction site [chemical binding]; other site 709991003037 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003038 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 709991003039 non-specific DNA binding site [nucleotide binding]; other site 709991003040 salt bridge; other site 709991003041 sequence-specific DNA binding site [nucleotide binding]; other site 709991003042 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 709991003043 non-specific DNA binding site [nucleotide binding]; other site 709991003044 salt bridge; other site 709991003045 sequence-specific DNA binding site [nucleotide binding]; other site 709991003046 ORF6N domain; Region: ORF6N; pfam10543 709991003047 ORF6N domain; Region: ORF6N; pfam10543 709991003048 Protein of unknown function DUF262; Region: DUF262; cl14890 709991003049 Protein of unknown function DUF262; Region: DUF262; cl14890 709991003050 Protein of unknown function DUF262; Region: DUF262; cl14890 709991003051 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 709991003052 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 709991003053 Uncharacterized conserved protein [Function unknown]; Region: COG3410 709991003054 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 709991003055 Catalytic site [active] 709991003056 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 709991003057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 709991003058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 709991003059 Coenzyme A binding pocket [chemical binding]; other site 709991003060 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 709991003061 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 709991003062 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 709991003063 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 709991003064 Reverse gyrase [DNA replication, recombination, and repair]; Region: COG1110 709991003065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003066 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 709991003067 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 709991003068 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 709991003069 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 709991003070 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 709991003071 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 709991003072 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 709991003073 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 709991003074 active site 709991003075 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991003076 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991003077 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991003078 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 709991003079 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 709991003080 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 709991003081 Protein of unknown function, DUF479; Region: DUF479; cl01203 709991003082 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 709991003083 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 709991003084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991003085 catalytic residue [active] 709991003086 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 709991003087 AMP-binding enzyme; Region: AMP-binding; cl15778 709991003088 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 709991003089 AMP-binding enzyme; Region: AMP-binding; cl15778 709991003090 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 709991003091 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 709991003092 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003093 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 709991003094 CAAX protease self-immunity; Region: Abi; cl00558 709991003095 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 709991003096 active site 709991003097 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 709991003098 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991003099 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991003100 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003101 Domain of unknown function (DUF4221); Region: DUF4221; pfam13970 709991003102 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991003103 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991003104 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 709991003105 active site 709991003106 phosphorylation site [posttranslational modification] 709991003107 intermolecular recognition site; other site 709991003108 dimerization interface [polypeptide binding]; other site 709991003109 Helix-turn-helix domains; Region: HTH; cl00088 709991003110 DNA binding site [nucleotide binding] 709991003111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991003112 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 709991003113 ATP binding site [chemical binding]; other site 709991003114 Mg2+ binding site [ion binding]; other site 709991003115 G-X-G motif; other site 709991003116 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 709991003117 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991003118 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 709991003119 active site 709991003120 phosphorylation site [posttranslational modification] 709991003121 intermolecular recognition site; other site 709991003122 dimerization interface [polypeptide binding]; other site 709991003123 Helix-turn-helix domains; Region: HTH; cl00088 709991003124 DNA binding site [nucleotide binding] 709991003125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991003126 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 709991003127 ATP binding site [chemical binding]; other site 709991003128 Mg2+ binding site [ion binding]; other site 709991003129 G-X-G motif; other site 709991003130 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 709991003131 Catalytic site [active] 709991003132 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 709991003133 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 709991003134 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 709991003135 FAD binding pocket [chemical binding]; other site 709991003136 FAD binding motif [chemical binding]; other site 709991003137 phosphate binding motif [ion binding]; other site 709991003138 beta-alpha-beta structure motif; other site 709991003139 NAD binding pocket [chemical binding]; other site 709991003140 Iron coordination center [ion binding]; other site 709991003141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003142 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 709991003143 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991003144 FtsX-like permease family; Region: FtsX; cl15850 709991003145 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 709991003146 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991003147 FtsX-like permease family; Region: FtsX; cl15850 709991003148 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991003149 FtsX-like permease family; Region: FtsX; cl15850 709991003150 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991003151 FtsX-like permease family; Region: FtsX; cl15850 709991003152 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991003153 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003154 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991003155 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 709991003156 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 709991003157 active site 709991003158 phosphorylation site [posttranslational modification] 709991003159 intermolecular recognition site; other site 709991003160 dimerization interface [polypeptide binding]; other site 709991003161 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991003162 Walker A motif; other site 709991003163 ATP binding site [chemical binding]; other site 709991003164 Walker B motif; other site 709991003165 arginine finger; other site 709991003166 Helix-turn-helix domains; Region: HTH; cl00088 709991003167 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 709991003168 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 709991003169 ATP binding site [chemical binding]; other site 709991003170 Mg2+ binding site [ion binding]; other site 709991003171 G-X-G motif; other site 709991003172 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 709991003173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991003174 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 709991003175 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 709991003176 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 709991003177 generic binding surface II; other site 709991003178 generic binding surface I; other site 709991003179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 709991003180 Predicted GTPase [General function prediction only]; Region: COG0218 709991003181 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 709991003182 G1 box; other site 709991003183 GTP/Mg2+ binding site [chemical binding]; other site 709991003184 Switch I region; other site 709991003185 G2 box; other site 709991003186 G3 box; other site 709991003187 Switch II region; other site 709991003188 G4 box; other site 709991003189 G5 box; other site 709991003190 RmuC family; Region: RmuC; pfam02646 709991003191 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 709991003192 DEAD-like helicases superfamily; Region: DEXDc; smart00487 709991003193 ATP binding site [chemical binding]; other site 709991003194 Mg++ binding site [ion binding]; other site 709991003195 motif III; other site 709991003196 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 709991003197 nucleotide binding region [chemical binding]; other site 709991003198 ATP-binding site [chemical binding]; other site 709991003199 DbpA RNA binding domain; Region: DbpA; pfam03880 709991003200 cell division protein FtsZ; Validated; Region: PRK09330 709991003201 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 709991003202 nucleotide binding site [chemical binding]; other site 709991003203 SulA interaction site; other site 709991003204 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 709991003205 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 709991003206 nucleotide binding site [chemical binding]; other site 709991003207 SulA interaction site; other site 709991003208 cell division protein FtsA; Region: ftsA; TIGR01174 709991003209 Cell division protein FtsA; Region: FtsA; cl11496 709991003210 Cell division protein FtsA; Region: FtsA; cl11496 709991003211 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 709991003212 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 709991003213 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 709991003214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991003215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 709991003216 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 709991003217 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 709991003218 active site 709991003219 homodimer interface [polypeptide binding]; other site 709991003220 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 709991003221 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 709991003222 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991003223 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 709991003224 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 709991003225 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 709991003226 Mg++ binding site [ion binding]; other site 709991003227 putative catalytic motif [active] 709991003228 putative substrate binding site [chemical binding]; other site 709991003229 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 709991003230 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 709991003231 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991003232 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 709991003233 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 709991003234 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 709991003235 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991003236 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 709991003237 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 709991003238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 709991003240 MraZ protein; Region: MraZ; pfam02381 709991003241 MraZ protein; Region: MraZ; pfam02381 709991003242 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 709991003243 Int/Topo IB signature motif; other site 709991003244 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991003245 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 709991003246 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991003247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991003248 Helix-turn-helix domains; Region: HTH; cl00088 709991003249 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 709991003250 ZIP Zinc transporter; Region: Zip; pfam02535 709991003251 Methyltransferase domain; Region: Methyltransf_31; pfam13847 709991003252 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 709991003253 S-adenosylmethionine binding site [chemical binding]; other site 709991003254 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 709991003255 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003256 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 709991003257 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003258 Phospholipid methyltransferase; Region: PEMT; cl00763 709991003259 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991003260 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991003261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003262 Walker A/P-loop; other site 709991003263 ATP binding site [chemical binding]; other site 709991003264 Q-loop/lid; other site 709991003265 ABC transporter signature motif; other site 709991003266 Walker B; other site 709991003267 D-loop; other site 709991003268 H-loop/switch region; other site 709991003269 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991003270 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991003271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003272 Walker A/P-loop; other site 709991003273 ATP binding site [chemical binding]; other site 709991003274 Q-loop/lid; other site 709991003275 ABC transporter signature motif; other site 709991003276 Walker B; other site 709991003277 D-loop; other site 709991003278 H-loop/switch region; other site 709991003279 RteC protein; Region: RteC; pfam09357 709991003280 Protein of unknown function (DUF4099); Region: DUF4099; pfam13351 709991003281 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 709991003282 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 709991003283 Protein of unknown function (DUF3945); Region: DUF3945; pfam13101 709991003284 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 709991003285 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 709991003286 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 709991003287 SmpB-tmRNA interface; other site 709991003288 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003289 catalytic residues [active] 709991003290 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 709991003291 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 709991003292 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 709991003293 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 709991003294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 709991003295 Protein of unknown function (DUF969); Region: DUF969; cl01573 709991003296 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 709991003297 GatB domain; Region: GatB_Yqey; cl11497 709991003298 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 709991003299 Surface antigen; Region: Bac_surface_Ag; cl03097 709991003300 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991003301 MatE; Region: MatE; cl10513 709991003302 MatE; Region: MatE; cl10513 709991003303 FecR protein; Region: FecR; pfam04773 709991003304 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003305 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003306 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 709991003307 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 709991003308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991003309 homodimer interface [polypeptide binding]; other site 709991003310 catalytic residue [active] 709991003311 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 709991003312 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 709991003313 N-acetyl-D-glucosamine binding site [chemical binding]; other site 709991003314 catalytic residue [active] 709991003315 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 709991003316 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 709991003317 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 709991003318 active site 709991003319 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991003320 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003321 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003322 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 709991003323 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 709991003324 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991003325 Domain of unknown function (DUF386); Region: DUF386; cl01047 709991003326 GTPase Era; Reviewed; Region: era; PRK00089 709991003327 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 709991003328 G1 box; other site 709991003329 GTP/Mg2+ binding site [chemical binding]; other site 709991003330 Switch I region; other site 709991003331 G2 box; other site 709991003332 Switch II region; other site 709991003333 G3 box; other site 709991003334 G4 box; other site 709991003335 G5 box; other site 709991003336 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 709991003337 GTP-binding protein Der; Reviewed; Region: PRK00093 709991003338 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 709991003339 G1 box; other site 709991003340 GTP/Mg2+ binding site [chemical binding]; other site 709991003341 Switch I region; other site 709991003342 G2 box; other site 709991003343 Switch II region; other site 709991003344 G3 box; other site 709991003345 G4 box; other site 709991003346 G5 box; other site 709991003347 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 709991003348 G1 box; other site 709991003349 GTP/Mg2+ binding site [chemical binding]; other site 709991003350 Switch I region; other site 709991003351 G2 box; other site 709991003352 G3 box; other site 709991003353 Switch II region; other site 709991003354 G4 box; other site 709991003355 G5 box; other site 709991003356 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 709991003357 ferredoxin; Validated; Region: PRK07118 709991003358 Putative Fe-S cluster; Region: FeS; pfam04060 709991003359 4Fe-4S binding domain; Region: Fer4; cl02805 709991003360 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 709991003361 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 709991003362 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 709991003363 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 709991003364 SLBB domain; Region: SLBB; pfam10531 709991003365 4Fe-4S binding domain; Region: Fer4; cl02805 709991003366 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 709991003367 FMN-binding domain; Region: FMN_bind; cl01081 709991003368 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 709991003369 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 709991003370 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 709991003371 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 709991003372 active site 709991003373 NTP binding site [chemical binding]; other site 709991003374 metal binding triad [ion binding]; metal-binding site 709991003375 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 709991003376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 709991003377 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 709991003378 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 709991003379 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 709991003380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003381 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991003382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003383 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 709991003384 MG2 domain; Region: A2M_N; pfam01835 709991003385 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 709991003386 Alpha-2-macroglobulin family; Region: A2M; pfam00207 709991003387 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 709991003388 surface patch; other site 709991003389 thioester region; other site 709991003390 specificity defining residues; other site 709991003391 Divergent AAA domain; Region: AAA_4; pfam04326 709991003392 MarC family integral membrane protein; Region: MarC; cl00919 709991003393 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003394 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991003395 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003396 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003397 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003398 Flavin Reductases; Region: FlaRed; cl00801 709991003399 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 709991003400 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 709991003401 inhibitor-cofactor binding pocket; inhibition site 709991003402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991003403 catalytic residue [active] 709991003404 Family of unknown function (DUF490); Region: DUF490; pfam04357 709991003405 UGMP family protein; Validated; Region: PRK09604 709991003406 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 709991003407 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 709991003408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003409 Protein of unknown function, DUF399; Region: DUF399; cl01139 709991003410 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 709991003411 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 709991003412 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 709991003413 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 709991003414 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 709991003415 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003416 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 709991003417 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991003418 N-terminal plug; other site 709991003419 ligand-binding site [chemical binding]; other site 709991003420 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 709991003421 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991003422 N-terminal plug; other site 709991003423 ligand-binding site [chemical binding]; other site 709991003424 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991003425 MatE; Region: MatE; cl10513 709991003426 MatE; Region: MatE; cl10513 709991003427 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 709991003428 nudix motif; other site 709991003429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003430 active site 709991003431 NAD+ binding site [chemical binding]; other site 709991003432 oligomerization interface [polypeptide binding]; other site 709991003433 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 709991003434 trimer interface [polypeptide binding]; other site 709991003435 active site 709991003436 hypothetical protein; Provisional; Region: PRK01184 709991003437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003438 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 709991003439 Transposase domain (DUF772); Region: DUF772; cl15789 709991003440 Transposase domain (DUF772); Region: DUF772; cl15789 709991003441 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003442 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003443 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003444 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003445 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003446 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003447 DDE superfamily endonuclease; Region: DDE_5; cl02413 709991003448 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003449 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991003450 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003451 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003452 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003453 Protein of unknown function, DUF399; Region: DUF399; cl01139 709991003454 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 709991003455 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 709991003456 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 709991003457 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 709991003458 active site 709991003459 DNA polymerase IV; Validated; Region: PRK02406 709991003460 DNA binding site [nucleotide binding] 709991003461 Pirin-related protein [General function prediction only]; Region: COG1741 709991003462 Cupin domain; Region: Cupin_2; cl09118 709991003463 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 709991003464 EamA-like transporter family; Region: EamA; cl01037 709991003465 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 709991003466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003467 Family description; Region: UvrD_C_2; cl15862 709991003468 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 709991003469 NADH dehydrogenase subunit B; Provisional; Region: PRK14816 709991003470 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 709991003471 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 709991003472 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 709991003473 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 709991003474 NADH dehydrogenase; Region: NADHdh; cl00469 709991003475 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 709991003476 4Fe-4S binding domain; Region: Fer4; cl02805 709991003477 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 709991003478 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 709991003479 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 709991003480 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 709991003481 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 709991003482 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 709991003483 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 709991003484 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 709991003485 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 709991003486 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 709991003487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003488 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 709991003489 phosphoglycolate phosphatase; Provisional; Region: PRK13222 709991003490 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 709991003491 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 709991003492 motif II; other site 709991003493 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 709991003494 active site 709991003495 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991003496 MatE; Region: MatE; cl10513 709991003497 MatE; Region: MatE; cl10513 709991003498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 709991003499 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991003500 MatE; Region: MatE; cl10513 709991003501 MatE; Region: MatE; cl10513 709991003502 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 709991003503 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 709991003504 motif II; other site 709991003505 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003506 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991003507 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003508 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 709991003509 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003510 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003511 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 709991003512 catalytic residues [active] 709991003513 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003514 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003515 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003516 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003517 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003518 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003519 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003520 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003521 FecR protein; Region: FecR; pfam04773 709991003522 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003523 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003525 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991003526 DNA binding residues [nucleotide binding] 709991003527 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 709991003528 Phosphopantetheine attachment site; Region: PP-binding; cl09936 709991003529 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 709991003530 AMP-binding enzyme; Region: AMP-binding; cl15778 709991003531 ATP synthase; Region: ATP-synt; cl00365 709991003532 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 709991003533 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 709991003534 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 709991003535 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 709991003536 beta subunit interaction interface [polypeptide binding]; other site 709991003537 Walker A motif; other site 709991003538 ATP binding site [chemical binding]; other site 709991003539 Walker B motif; other site 709991003540 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 709991003541 Plant ATP synthase F0; Region: YMF19; cl07975 709991003542 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 709991003543 Plant ATP synthase F0; Region: YMF19; cl07975 709991003544 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 709991003545 ATP synthase subunit C; Region: ATP-synt_C; cl00466 709991003546 ATP synthase A chain; Region: ATP-synt_A; cl00413 709991003547 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 709991003548 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 709991003549 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 709991003550 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 709991003551 alpha subunit interaction interface [polypeptide binding]; other site 709991003552 Walker A motif; other site 709991003553 ATP binding site [chemical binding]; other site 709991003554 Walker B motif; other site 709991003555 inhibitor binding site; inhibition site 709991003556 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 709991003557 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 709991003558 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 709991003559 ATP binding site [chemical binding]; other site 709991003560 Mg++ binding site [ion binding]; other site 709991003561 motif III; other site 709991003562 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 709991003563 nucleotide binding region [chemical binding]; other site 709991003564 ATP-binding site [chemical binding]; other site 709991003565 Lipocalin-like domain; Region: Lipocalin_6; pfam13944 709991003566 Lipocalin-like domain; Region: Lipocalin_6; pfam13944 709991003567 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991003568 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991003569 Glutaminase; Region: Glutaminase; cl00907 709991003570 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 709991003571 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 709991003572 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 709991003573 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003574 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991003575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003576 Restriction endonuclease; Region: Mrr_cat; cl00516 709991003577 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 709991003578 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 709991003579 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 709991003580 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 709991003581 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 709991003582 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 709991003583 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 709991003584 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 709991003585 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 709991003586 Walker A motif; other site 709991003587 ATP binding site [chemical binding]; other site 709991003588 Walker B motif; other site 709991003589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991003590 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 709991003591 active site 709991003592 phosphorylation site [posttranslational modification] 709991003593 intermolecular recognition site; other site 709991003594 dimerization interface [polypeptide binding]; other site 709991003595 Helix-turn-helix domains; Region: HTH; cl00088 709991003596 DNA binding site [nucleotide binding] 709991003597 FecR protein; Region: FecR; pfam04773 709991003598 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003599 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003600 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003601 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991003602 DNA binding residues [nucleotide binding] 709991003603 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 709991003604 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 709991003605 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003606 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 709991003607 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 709991003608 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 709991003609 active site 709991003610 substrate binding site [chemical binding]; other site 709991003611 coenzyme B12 binding site [chemical binding]; other site 709991003612 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 709991003613 B12 binding site [chemical binding]; other site 709991003614 cobalt ligand [ion binding]; other site 709991003615 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 709991003616 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 709991003617 heterodimer interface [polypeptide binding]; other site 709991003618 substrate interaction site [chemical binding]; other site 709991003619 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 709991003620 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991003621 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 709991003622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991003623 SCP-2 sterol transfer family; Region: SCP2; cl01225 709991003624 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 709991003625 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 709991003626 motif II; other site 709991003627 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 709991003628 active site 709991003629 catalytic site [active] 709991003630 substrate binding site [chemical binding]; other site 709991003631 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 709991003632 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 709991003633 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 709991003634 trimer interface [polypeptide binding]; other site 709991003635 active site 709991003636 substrate binding site [chemical binding]; other site 709991003637 CoA binding site [chemical binding]; other site 709991003638 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 709991003639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003640 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003641 catalytic residues [active] 709991003642 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003643 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003644 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003645 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003646 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003647 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003648 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003649 FecR protein; Region: FecR; pfam04773 709991003650 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003651 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003652 Helix-turn-helix domains; Region: HTH; cl00088 709991003653 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 709991003654 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 709991003655 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 709991003656 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 709991003657 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003658 catalytic residues [active] 709991003659 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003660 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003661 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003662 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003663 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003664 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003665 FecR protein; Region: FecR; pfam04773 709991003666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991003667 Major fimbrial subunit protein (FimA); Region: P_gingi_FimA; pfam06321 709991003668 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991003669 Domain of unknown function, B. Theta Gene description (DUF3868); Region: DUF3868; pfam12984 709991003670 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 709991003671 ligand binding site [chemical binding]; other site 709991003672 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 709991003673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3055 709991003674 Kelch motif; Region: Kelch_1; cl02701 709991003675 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 709991003676 PAP2_like_5 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_5; cd03394 709991003677 active site 709991003678 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 709991003679 Transglycosylase; Region: Transgly; cl07896 709991003680 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991003681 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 709991003682 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 709991003683 Cytokine receptor motif; other site 709991003684 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991003685 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991003686 Low molecular weight phosphatase family; Region: LMWPc; cd00115 709991003687 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 709991003688 active site 709991003689 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 709991003690 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 709991003691 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003692 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003693 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003694 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003695 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003696 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003697 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003698 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003699 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003700 FecR protein; Region: FecR; pfam04773 709991003701 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003703 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991003704 DNA binding residues [nucleotide binding] 709991003705 Transposase domain (DUF772); Region: DUF772; cl15789 709991003706 Transposase domain (DUF772); Region: DUF772; cl15789 709991003707 Domain of unknown function DUF20; Region: UPF0118; pfam01594 709991003708 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 709991003709 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 709991003710 nudix motif; other site 709991003711 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 709991003712 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 709991003713 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 709991003714 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003715 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 709991003716 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991003717 DNA binding residues [nucleotide binding] 709991003718 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 709991003719 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 709991003720 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 709991003721 protein binding site [polypeptide binding]; other site 709991003722 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 709991003723 protein binding site [polypeptide binding]; other site 709991003724 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 709991003725 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 709991003726 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 709991003727 META domain; Region: META; cl01245 709991003728 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 709991003729 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003730 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 709991003731 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 709991003732 FMN-binding domain; Region: FMN_bind; cl01081 709991003733 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 709991003734 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 709991003735 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 709991003736 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 709991003737 FAD binding pocket [chemical binding]; other site 709991003738 FAD binding motif [chemical binding]; other site 709991003739 phosphate binding motif [ion binding]; other site 709991003740 beta-alpha-beta structure motif; other site 709991003741 NAD binding pocket [chemical binding]; other site 709991003742 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991003743 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003744 catalytic residues [active] 709991003745 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 709991003746 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003747 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003748 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003749 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003750 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003751 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003752 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003753 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003754 FecR protein; Region: FecR; pfam04773 709991003755 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003757 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991003758 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 709991003759 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 709991003760 dimer interface [polypeptide binding]; other site 709991003761 active site 709991003762 glycine-pyridoxal phosphate binding site [chemical binding]; other site 709991003763 folate binding site [chemical binding]; other site 709991003764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991003765 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 709991003766 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 709991003767 active site 709991003768 (T/H)XGH motif; other site 709991003769 pyruvate carboxylase subunit B; Validated; Region: PRK09282 709991003770 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 709991003771 active site 709991003772 catalytic residues [active] 709991003773 metal binding site [ion binding]; metal-binding site 709991003774 homodimer binding site [polypeptide binding]; other site 709991003775 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 709991003776 carboxyltransferase (CT) interaction site; other site 709991003777 biotinylation site [posttranslational modification]; other site 709991003778 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 709991003779 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991003780 NlpC/P60 family; Region: NLPC_P60; cl11438 709991003781 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 709991003782 catalytic residues [active] 709991003783 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991003784 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991003785 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991003786 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 709991003787 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991003788 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 709991003789 catalytic residues [active] 709991003790 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 709991003791 putative peptidoglycan binding site; other site 709991003792 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 709991003793 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 709991003794 ligand binding site [chemical binding]; other site 709991003795 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 709991003796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 709991003797 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 709991003798 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 709991003799 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 709991003800 RNA binding surface [nucleotide binding]; other site 709991003801 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 709991003802 active site 709991003803 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 709991003804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 709991003805 dimer interface [polypeptide binding]; other site 709991003806 active site 709991003807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991003808 catalytic residues [active] 709991003809 substrate binding site [chemical binding]; other site 709991003810 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 709991003811 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991003812 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991003813 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991003814 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003815 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991003816 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 709991003817 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 709991003818 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 709991003819 putative catalytic site [active] 709991003820 putative metal binding site [ion binding]; other site 709991003821 putative phosphate binding site [ion binding]; other site 709991003822 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 709991003823 RIP metalloprotease RseP; Region: TIGR00054 709991003824 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 709991003825 active site 709991003826 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 709991003827 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 709991003828 protein binding site [polypeptide binding]; other site 709991003829 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 709991003830 putative substrate binding region [chemical binding]; other site 709991003831 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 709991003832 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 709991003833 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 709991003834 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 709991003835 Peptidase family M23; Region: Peptidase_M23; pfam01551 709991003836 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 709991003837 Mechanosensitive ion channel; Region: MS_channel; pfam00924 709991003838 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003839 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991003840 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003841 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991003842 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991003843 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 709991003844 putative substrate translocation pore; other site 709991003845 glucose/galactose transporter; Region: gluP; TIGR01272 709991003846 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 709991003847 putative ligand binding site [chemical binding]; other site 709991003848 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 709991003849 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 709991003850 G1 box; other site 709991003851 putative GEF interaction site [polypeptide binding]; other site 709991003852 GTP/Mg2+ binding site [chemical binding]; other site 709991003853 Switch I region; other site 709991003854 G2 box; other site 709991003855 G3 box; other site 709991003856 Switch II region; other site 709991003857 G4 box; other site 709991003858 G5 box; other site 709991003859 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 709991003860 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 709991003861 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 709991003862 Response regulator receiver domain; Region: Response_reg; pfam00072 709991003863 active site 709991003864 phosphorylation site [posttranslational modification] 709991003865 intermolecular recognition site; other site 709991003866 dimerization interface [polypeptide binding]; other site 709991003867 excinuclease ABC subunit B; Provisional; Region: PRK05298 709991003868 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 709991003869 ATP binding site [chemical binding]; other site 709991003870 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 709991003871 nucleotide binding region [chemical binding]; other site 709991003872 ATP-binding site [chemical binding]; other site 709991003873 Ultra-violet resistance protein B; Region: UvrB; pfam12344 709991003874 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 709991003875 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; cl15837 709991003876 dimer interface [polypeptide binding]; other site 709991003877 active site 709991003878 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; cl15837 709991003879 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 709991003880 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 709991003881 metal binding site [ion binding]; metal-binding site 709991003882 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 709991003883 active site 709991003884 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991003885 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003886 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003887 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003888 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991003889 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991003890 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991003891 FecR protein; Region: FecR; pfam04773 709991003892 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991003893 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991003894 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 709991003895 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991003896 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK13951 709991003897 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003898 catalytic residues [active] 709991003899 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991003900 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003901 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991003902 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 709991003903 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 709991003904 Walker A/P-loop; other site 709991003905 ATP binding site [chemical binding]; other site 709991003906 Q-loop/lid; other site 709991003907 ABC transporter signature motif; other site 709991003908 Walker B; other site 709991003909 D-loop; other site 709991003910 H-loop/switch region; other site 709991003911 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991003912 KpsF/GutQ family protein; Region: kpsF; TIGR00393 709991003913 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 709991003914 putative active site [active] 709991003915 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 709991003916 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 709991003917 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 709991003918 ATP binding site [chemical binding]; other site 709991003919 putative Mg++ binding site [ion binding]; other site 709991003920 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 709991003921 nucleotide binding region [chemical binding]; other site 709991003922 ATP-binding site [chemical binding]; other site 709991003923 RQC domain; Region: RQC; cl09632 709991003924 HRDC domain; Region: HRDC; cl02578 709991003925 DNA polymerase sliding clamp subunit (PCNA homolog) [DNA replication, recombination, and repair]; Region: DnaN; COG0592 709991003926 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 709991003927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991003928 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 709991003929 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 709991003930 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 709991003931 dimer interface [polypeptide binding]; other site 709991003932 putative anticodon binding site; other site 709991003933 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 709991003934 motif 1; other site 709991003935 active site 709991003936 motif 2; other site 709991003937 motif 3; other site 709991003938 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991003939 catalytic residues [active] 709991003940 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003941 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 709991003942 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991003943 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003944 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003945 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003946 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003947 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003948 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003949 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 709991003950 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991003951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991003952 Fic family protein [Function unknown]; Region: COG3177 709991003953 Fic/DOC family; Region: Fic; cl00960 709991003954 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 709991003955 catalytic residues [active] 709991003956 catalytic nucleophile [active] 709991003957 Presynaptic Site I dimer interface [polypeptide binding]; other site 709991003958 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 709991003959 Synaptic Flat tetramer interface [polypeptide binding]; other site 709991003960 Synaptic Site I dimer interface [polypeptide binding]; other site 709991003961 DNA binding site [nucleotide binding] 709991003962 Helix-turn-helix domains; Region: HTH; cl00088 709991003963 Helix-turn-helix domains; Region: HTH; cl00088 709991003964 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 709991003965 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 709991003966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003967 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991003968 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 709991003969 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 709991003970 transcriptional regulator RcsB; Provisional; Region: PRK10840 709991003971 Helix-turn-helix domains; Region: HTH; cl00088 709991003972 DNA binding residues [nucleotide binding] 709991003973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991003974 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 709991003975 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 709991003976 non-specific DNA binding site [nucleotide binding]; other site 709991003977 salt bridge; other site 709991003978 sequence-specific DNA binding site [nucleotide binding]; other site 709991003979 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991003980 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 709991003981 DHH family; Region: DHH; pfam01368 709991003982 DHHA1 domain; Region: DHHA1; pfam02272 709991003983 recombination protein RecR; Reviewed; Region: recR; PRK00076 709991003984 RecR protein; Region: RecR; pfam02132 709991003985 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 709991003986 putative active site [active] 709991003987 putative metal-binding site [ion binding]; other site 709991003988 tetramer interface [polypeptide binding]; other site 709991003989 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 709991003990 catalytic residues [active] 709991003991 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991003992 OpgC protein; Region: OpgC_C; cl00792 709991003993 Acyltransferase family; Region: Acyl_transf_3; pfam01757 709991003994 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 709991003995 active site 709991003996 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991003997 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991003998 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991003999 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991004000 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991004001 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991004002 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004003 FecR protein; Region: FecR; pfam04773 709991004004 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991004005 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 709991004006 Protein of unknown function (DUF1703); Region: DUF1703; pfam08011 709991004007 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991004008 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004009 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991004010 DNA binding residues [nucleotide binding] 709991004011 Transposase domain (DUF772); Region: DUF772; cl15789 709991004012 Transposase domain (DUF772); Region: DUF772; cl15789 709991004013 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991004014 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991004015 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991004016 catalytic residues [active] 709991004017 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991004018 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 709991004019 catalytic residues [active] 709991004020 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 709991004021 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991004022 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991004023 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991004024 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991004025 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991004026 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991004027 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004028 FecR protein; Region: FecR; pfam04773 709991004029 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991004030 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004031 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991004032 DNA binding residues [nucleotide binding] 709991004033 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 709991004034 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 709991004035 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 709991004036 homotrimer interaction site [polypeptide binding]; other site 709991004037 putative active site [active] 709991004038 TIGR03987 family protein; Region: TIGR03987 709991004039 Rubrerythrin [Energy production and conversion]; Region: COG1592 709991004040 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 709991004041 binuclear metal center [ion binding]; other site 709991004042 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 709991004043 iron binding site [ion binding]; other site 709991004044 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 709991004045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 709991004046 putative substrate translocation pore; other site 709991004047 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 709991004048 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 709991004049 FMN binding site [chemical binding]; other site 709991004050 substrate binding site [chemical binding]; other site 709991004051 putative catalytic residue [active] 709991004052 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991004053 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991004054 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991004055 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991004056 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991004057 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 709991004058 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 709991004059 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991004060 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 709991004061 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991004062 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 709991004063 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991004064 Thermolysin metallopeptidase, alpha-helical domain; Region: Peptidase_M4_C; pfam02868 709991004065 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991004066 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004067 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991004068 DNA binding residues [nucleotide binding] 709991004069 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 709991004070 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 709991004071 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 709991004072 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991004073 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004074 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991004075 DNA binding residues [nucleotide binding] 709991004076 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991004077 FecR protein; Region: FecR; pfam04773 709991004078 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991004079 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991004080 catalytic residues [active] 709991004081 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991004082 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991004083 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991004084 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991004085 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004086 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991004087 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 709991004088 active site 709991004089 catalytic residues [active] 709991004090 FlgD Ig-like domain; Region: FlgD_ig; cl15790 709991004091 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991004092 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991004093 catalytic residues [active] 709991004094 putative transporter; Validated; Region: PRK03818 709991004095 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 709991004096 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991004097 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991004098 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 709991004099 Peptidase family M23; Region: Peptidase_M23; pfam01551 709991004100 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 709991004101 active site 709991004102 catalytic motif [active] 709991004103 Zn binding site [ion binding]; other site 709991004104 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 709991004105 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 709991004106 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 709991004107 putative peptidoglycan binding site; other site 709991004108 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 709991004109 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 709991004110 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 709991004111 Ligand binding site; other site 709991004112 Putative Catalytic site; other site 709991004113 DXD motif; other site 709991004114 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 709991004115 putative active site [active] 709991004116 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 709991004117 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 709991004118 pyruvate dehydrogenase; Provisional; Region: PRK06546 709991004119 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 709991004120 PYR/PP interface [polypeptide binding]; other site 709991004121 tetramer interface [polypeptide binding]; other site 709991004122 dimer interface [polypeptide binding]; other site 709991004123 TPP binding site [chemical binding]; other site 709991004124 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 709991004125 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 709991004126 TPP-binding site [chemical binding]; other site 709991004127 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 709991004128 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 709991004129 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 709991004130 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 709991004131 domain interface [polypeptide binding]; other site 709991004132 active site 709991004133 catalytic site [active] 709991004134 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 709991004135 putative active site [active] 709991004136 catalytic site [active] 709991004137 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 709991004138 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 709991004139 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991004140 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991004141 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 709991004142 carboxyltransferase (CT) interaction site; other site 709991004143 biotinylation site [posttranslational modification]; other site 709991004144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004145 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 709991004146 Walker A/P-loop; other site 709991004147 ATP binding site [chemical binding]; other site 709991004148 Q-loop/lid; other site 709991004149 ABC transporter signature motif; other site 709991004150 Walker B; other site 709991004151 D-loop; other site 709991004152 H-loop/switch region; other site 709991004153 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 709991004154 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 709991004155 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 709991004156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991004158 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 709991004159 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 709991004160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991004161 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 709991004162 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 709991004163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991004164 catalytic residue [active] 709991004165 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 709991004166 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 709991004167 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 709991004168 anti sigma factor interaction site; other site 709991004169 regulatory phosphorylation site [posttranslational modification]; other site 709991004170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991004171 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 709991004172 active site 709991004173 phosphorylation site [posttranslational modification] 709991004174 intermolecular recognition site; other site 709991004175 dimerization interface [polypeptide binding]; other site 709991004176 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 709991004177 DNA binding site [nucleotide binding] 709991004178 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991004179 dimer interface [polypeptide binding]; other site 709991004180 phosphorylation site [posttranslational modification] 709991004181 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 709991004182 ATP binding site [chemical binding]; other site 709991004183 Mg2+ binding site [ion binding]; other site 709991004184 G-X-G motif; other site 709991004185 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004186 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004187 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004188 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004189 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004190 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991004191 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 709991004192 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 709991004193 active site 709991004194 motif I; other site 709991004195 motif II; other site 709991004196 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 709991004197 pyruvate kinase; Provisional; Region: PRK05826 709991004198 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 709991004199 domain interfaces; other site 709991004200 active site 709991004201 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 709991004202 active site 709991004203 trimer interface [polypeptide binding]; other site 709991004204 dimer interface [polypeptide binding]; other site 709991004205 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 709991004206 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 709991004207 active site 709991004208 Int/Topo IB signature motif; other site 709991004209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004210 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 709991004211 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 709991004212 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991004213 Transposase domain (DUF772); Region: DUF772; cl15789 709991004214 Transposase domain (DUF772); Region: DUF772; cl15789 709991004215 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 709991004216 non-specific DNA binding site [nucleotide binding]; other site 709991004217 salt bridge; other site 709991004218 sequence-specific DNA binding site [nucleotide binding]; other site 709991004219 HipA N-terminal domain; Region: Couple_hipA; cl11853 709991004220 HipA-like N-terminal domain; Region: HipA_N; pfam07805 709991004221 HipA-like C-terminal domain; Region: HipA_C; pfam07804 709991004222 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 709991004223 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 709991004224 putative active site [active] 709991004225 putative metal binding site [ion binding]; other site 709991004226 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 709991004227 putative active site [active] 709991004228 putative metal binding site [ion binding]; other site 709991004229 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 709991004230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004231 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 709991004232 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 709991004233 non-specific DNA binding site [nucleotide binding]; other site 709991004234 salt bridge; other site 709991004235 sequence-specific DNA binding site [nucleotide binding]; other site 709991004236 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 709991004237 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004238 AAA domain; Region: AAA_21; pfam13304 709991004239 Walker A/P-loop; other site 709991004240 ATP binding site [chemical binding]; other site 709991004241 Q-loop/lid; other site 709991004242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004243 ABC transporter signature motif; other site 709991004244 Walker B; other site 709991004245 D-loop; other site 709991004246 H-loop/switch region; other site 709991004247 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 709991004248 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 709991004249 Domain of unknown function DUF87; Region: DUF87; pfam01935 709991004250 HerA helicase [Replication, recombination, and repair]; Region: COG0433 709991004251 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 709991004252 additional DNA contacts [nucleotide binding]; other site 709991004253 mismatch recognition site; other site 709991004254 active site 709991004255 zinc binding site [ion binding]; other site 709991004256 DNA intercalation site [nucleotide binding]; other site 709991004257 Virulence protein [General function prediction only]; Region: COG3943 709991004258 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 709991004259 Virulence protein [General function prediction only]; Region: COG3943 709991004260 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 709991004261 AAA domain; Region: AAA_25; pfam13481 709991004262 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004263 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 709991004264 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 709991004265 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 709991004266 Int/Topo IB signature motif; other site 709991004267 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004268 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004269 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 709991004270 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 709991004271 trmE is a tRNA modification GTPase; Region: trmE; cd04164 709991004272 G1 box; other site 709991004273 GTP/Mg2+ binding site [chemical binding]; other site 709991004274 Switch I region; other site 709991004275 G2 box; other site 709991004276 Switch II region; other site 709991004277 G3 box; other site 709991004278 G4 box; other site 709991004279 G5 box; other site 709991004280 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 709991004281 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 709991004282 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 709991004283 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 709991004284 substrate binding site [chemical binding]; other site 709991004285 tetramer interface [polypeptide binding]; other site 709991004286 catalytic residue [active] 709991004287 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 709991004288 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 709991004289 ATP binding site [chemical binding]; other site 709991004290 Mg++ binding site [ion binding]; other site 709991004291 motif III; other site 709991004292 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 709991004293 nucleotide binding region [chemical binding]; other site 709991004294 ATP-binding site [chemical binding]; other site 709991004295 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 709991004296 putative active site [active] 709991004297 PUA domain; Region: PUA; cl00607 709991004298 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 709991004299 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 709991004300 S-adenosylmethionine binding site [chemical binding]; other site 709991004301 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 709991004302 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 709991004303 active site 709991004304 substrate binding site [chemical binding]; other site 709991004305 metal binding site [ion binding]; metal-binding site 709991004306 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 709991004307 lipoyl attachment site [posttranslational modification]; other site 709991004308 putative efflux protein, MATE family; Region: matE; TIGR00797 709991004309 MatE; Region: MatE; cl10513 709991004310 MatE; Region: MatE; cl10513 709991004311 ornithine carbamoyltransferase; Validated; Region: PRK02102 709991004312 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 709991004313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991004314 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 709991004315 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 709991004316 putative substrate binding site [chemical binding]; other site 709991004317 nucleotide binding site [chemical binding]; other site 709991004318 nucleotide binding site [chemical binding]; other site 709991004319 homodimer interface [polypeptide binding]; other site 709991004320 Septum formation initiator; Region: DivIC; cl11433 709991004321 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 709991004322 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 709991004323 active site 709991004324 catalytic residues [active] 709991004325 metal binding site [ion binding]; metal-binding site 709991004326 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 709991004327 Competence protein; Region: Competence; cl00471 709991004328 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 709991004329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991004330 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991004331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991004332 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991004333 Cation transport protein; Region: TrkH; cl10514 709991004334 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 709991004335 MgtC family; Region: MgtC; pfam02308 709991004336 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 709991004337 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 709991004338 active site 709991004339 intersubunit interactions; other site 709991004340 catalytic residue [active] 709991004341 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991004342 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991004343 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991004344 catalytic residues [active] 709991004345 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991004346 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991004347 FecR protein; Region: FecR; pfam04773 709991004348 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 709991004349 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 709991004350 dimer interface [polypeptide binding]; other site 709991004351 motif 1; other site 709991004352 active site 709991004353 motif 2; other site 709991004354 motif 3; other site 709991004355 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 709991004356 anticodon binding site; other site 709991004357 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 709991004358 active sites [active] 709991004359 tetramer interface [polypeptide binding]; other site 709991004360 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 709991004361 MG2 domain; Region: A2M_N; pfam01835 709991004362 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 709991004363 Alpha-2-macroglobulin family; Region: A2M; pfam00207 709991004364 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 709991004365 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 709991004366 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991004367 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 709991004368 active site 709991004369 phosphorylation site [posttranslational modification] 709991004370 intermolecular recognition site; other site 709991004371 dimerization interface [polypeptide binding]; other site 709991004372 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 709991004373 DNA binding site [nucleotide binding] 709991004374 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991004375 dimer interface [polypeptide binding]; other site 709991004376 phosphorylation site [posttranslational modification] 709991004377 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 709991004378 ATP binding site [chemical binding]; other site 709991004379 Mg2+ binding site [ion binding]; other site 709991004380 G-X-G motif; other site 709991004381 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991004382 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991004383 catalytic residues [active] 709991004384 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 709991004385 TPR motif; other site 709991004386 binding surface 709991004387 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 709991004388 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 709991004389 motif 1; other site 709991004390 active site 709991004391 motif 2; other site 709991004392 motif 3; other site 709991004393 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 709991004394 Peptidase family M23; Region: Peptidase_M23; pfam01551 709991004395 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 709991004396 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 709991004397 DNA binding residues [nucleotide binding] 709991004398 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 709991004399 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 709991004400 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 709991004401 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 709991004402 Putative zinc ribbon domain; Region: DUF164; pfam02591 709991004403 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 709991004404 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991004405 active site 709991004406 HIGH motif; other site 709991004407 nucleotide binding site [chemical binding]; other site 709991004408 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 709991004409 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 709991004410 active site 709991004411 KMSKS motif; other site 709991004412 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 709991004413 tRNA binding surface [nucleotide binding]; other site 709991004414 anticodon binding site; other site 709991004415 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 709991004416 Transposase domain (DUF772); Region: DUF772; cl15789 709991004417 Transposase domain (DUF772); Region: DUF772; cl15789 709991004418 HipA N-terminal domain; Region: Couple_hipA; cl11853 709991004419 HipA-like N-terminal domain; Region: HipA_N; pfam07805 709991004420 HipA-like C-terminal domain; Region: HipA_C; pfam07804 709991004421 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 709991004422 non-specific DNA binding site [nucleotide binding]; other site 709991004423 salt bridge; other site 709991004424 sequence-specific DNA binding site [nucleotide binding]; other site 709991004425 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 709991004426 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991004427 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991004428 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991004429 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991004430 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991004431 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991004432 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004433 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991004434 FecR protein; Region: FecR; pfam04773 709991004435 Divergent AAA domain; Region: AAA_4; pfam04326 709991004436 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 709991004437 WYL domain; Region: WYL; cl14852 709991004438 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 709991004439 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 709991004440 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 709991004441 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991004442 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991004443 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991004444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004445 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991004446 DNA binding residues [nucleotide binding] 709991004447 NAD-dependent deacetylase; Provisional; Region: PRK00481 709991004448 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 709991004449 NAD+ binding site [chemical binding]; other site 709991004450 substrate binding site [chemical binding]; other site 709991004451 Zn binding site [ion binding]; other site 709991004452 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 709991004453 TRAM domain; Region: TRAM; cl01282 709991004454 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 709991004455 S-adenosylmethionine binding site [chemical binding]; other site 709991004456 Ferritin-like domain; Region: Ferritin; pfam00210 709991004457 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 709991004458 dimerization interface [polypeptide binding]; other site 709991004459 DPS ferroxidase diiron center [ion binding]; other site 709991004460 ion pore; other site 709991004461 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 709991004462 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 709991004463 CrcB-like protein; Region: CRCB; cl09114 709991004464 A new structural DNA glycosylase; Region: AlkD_like; cl11434 709991004465 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 709991004466 active site 709991004467 substrate-binding site [chemical binding]; other site 709991004468 metal-binding site [ion binding] 709991004469 ATP binding site [chemical binding]; other site 709991004470 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 709991004471 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 709991004472 active site 709991004473 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 709991004474 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 709991004475 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 709991004476 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 709991004477 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 709991004478 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 709991004479 trimer interface [polypeptide binding]; other site 709991004480 active site 709991004481 UDP-GlcNAc binding site [chemical binding]; other site 709991004482 lipid binding site [chemical binding]; lipid-binding site 709991004483 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 709991004484 transcription termination factor NusA; Region: NusA; TIGR01953 709991004485 NusA N-terminal domain; Region: NusA_N; pfam08529 709991004486 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 709991004487 RNA binding site [nucleotide binding]; other site 709991004488 homodimer interface [polypeptide binding]; other site 709991004489 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 709991004490 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 709991004491 G-X-X-G motif; other site 709991004492 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 709991004493 translation initiation factor IF-2; Region: IF-2; TIGR00487 709991004494 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 709991004495 G1 box; other site 709991004496 putative GEF interaction site [polypeptide binding]; other site 709991004497 GTP/Mg2+ binding site [chemical binding]; other site 709991004498 Switch I region; other site 709991004499 G2 box; other site 709991004500 G3 box; other site 709991004501 Switch II region; other site 709991004502 G4 box; other site 709991004503 G5 box; other site 709991004504 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 709991004505 Translation-initiation factor 2; Region: IF-2; pfam11987 709991004506 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 709991004507 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 709991004508 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 709991004509 putative active site [active] 709991004510 putative metal binding site [ion binding]; other site 709991004511 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 709991004512 active site 709991004513 dimer interfaces [polypeptide binding]; other site 709991004514 catalytic residues [active] 709991004515 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991004516 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991004517 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 709991004518 Protein export membrane protein; Region: SecD_SecF; cl14618 709991004519 Outer membrane efflux protein; Region: OEP; pfam02321 709991004520 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 709991004521 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 709991004522 motif II; other site 709991004523 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 709991004524 CoenzymeA binding site [chemical binding]; other site 709991004525 subunit interaction site [polypeptide binding]; other site 709991004526 PHB binding site; other site 709991004527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 709991004528 DNA-binding site [nucleotide binding]; DNA binding site 709991004529 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 709991004530 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004531 Walker A/P-loop; other site 709991004532 ATP binding site [chemical binding]; other site 709991004533 Q-loop/lid; other site 709991004534 ABC transporter signature motif; other site 709991004535 Walker B; other site 709991004536 D-loop; other site 709991004537 H-loop/switch region; other site 709991004538 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 709991004539 nucleotide binding site/active site [active] 709991004540 HIT family signature motif; other site 709991004541 catalytic residue [active] 709991004542 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 709991004543 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 709991004544 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 709991004545 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 709991004546 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 709991004547 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 709991004548 active site 709991004549 substrate binding site [chemical binding]; other site 709991004550 metal binding site [ion binding]; metal-binding site 709991004551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004552 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 709991004553 Family description; Region: UvrD_C_2; cl15862 709991004554 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 709991004555 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 709991004556 S-adenosylmethionine binding site [chemical binding]; other site 709991004557 glycine dehydrogenase; Provisional; Region: PRK05367 709991004558 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 709991004559 tetramer interface [polypeptide binding]; other site 709991004560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991004561 catalytic residue [active] 709991004562 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 709991004563 tetramer interface [polypeptide binding]; other site 709991004564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991004565 catalytic residue [active] 709991004566 NeuB family; Region: NeuB; cl00496 709991004567 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_5; cd06153 709991004568 homotrimer interaction site [polypeptide binding]; other site 709991004569 putative active site [active] 709991004570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991004571 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991004572 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 709991004573 Walker A/P-loop; other site 709991004574 ATP binding site [chemical binding]; other site 709991004575 Q-loop/lid; other site 709991004576 ABC transporter signature motif; other site 709991004577 Walker B; other site 709991004578 D-loop; other site 709991004579 H-loop/switch region; other site 709991004580 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 709991004581 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 709991004582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004583 Walker A/P-loop; other site 709991004584 ATP binding site [chemical binding]; other site 709991004585 Q-loop/lid; other site 709991004586 ABC transporter signature motif; other site 709991004587 Walker B; other site 709991004588 D-loop; other site 709991004589 H-loop/switch region; other site 709991004590 V-type ATP synthase subunit K; Validated; Region: PRK06558 709991004591 ATP synthase subunit C; Region: ATP-synt_C; cl00466 709991004592 V-type ATP synthase subunit I; Validated; Region: PRK05771 709991004593 ATP synthase subunit D; Region: ATP-synt_D; cl00613 709991004594 V-type ATP synthase subunit B; Provisional; Region: PRK02118 709991004595 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 709991004596 Walker A motif homologous position; other site 709991004597 Walker B motif; other site 709991004598 V-type ATP synthase subunit A; Provisional; Region: PRK04192 709991004599 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 709991004600 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 709991004601 Walker A motif/ATP binding site; other site 709991004602 Walker B motif; other site 709991004603 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 709991004604 Plant ATP synthase F0; Region: YMF19; cl07975 709991004605 TIR domain; Region: TIR_2; cl15770 709991004606 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 709991004607 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 709991004608 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 709991004609 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 709991004610 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 709991004611 ParB-like nuclease domain; Region: ParBc; cl02129 709991004612 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 709991004613 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 709991004614 Active Sites [active] 709991004615 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 709991004616 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 709991004617 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 709991004618 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 709991004619 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 709991004620 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991004621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991004622 Q-loop/lid; other site 709991004623 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991004624 ABC transporter signature motif; other site 709991004625 Walker B; other site 709991004626 D-loop; other site 709991004627 ABC transporter; Region: ABC_tran_2; pfam12848 709991004628 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991004629 AAA domain; Region: AAA_32; pfam13654 709991004630 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 709991004631 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 709991004632 Glutamate binding site [chemical binding]; other site 709991004633 NAD binding site [chemical binding]; other site 709991004634 catalytic residues [active] 709991004635 MatE; Region: MatE; cl10513 709991004636 Domain of unknown function (DUF389); Region: DUF389; cl00781 709991004637 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 709991004638 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 709991004639 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 709991004640 generic binding surface II; other site 709991004641 ssDNA binding site; other site 709991004642 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 709991004643 ATP binding site [chemical binding]; other site 709991004644 putative Mg++ binding site [ion binding]; other site 709991004645 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 709991004646 nucleotide binding region [chemical binding]; other site 709991004647 ATP-binding site [chemical binding]; other site 709991004648 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 709991004649 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 709991004650 Aspartase; Region: Aspartase; cd01357 709991004651 active sites [active] 709991004652 tetramer interface [polypeptide binding]; other site 709991004653 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 709991004654 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 709991004655 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 709991004656 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 709991004657 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 709991004658 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 709991004659 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 709991004660 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 709991004661 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 709991004662 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 709991004663 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 709991004664 DNA binding site [nucleotide binding] 709991004665 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 709991004666 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 709991004667 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 709991004668 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 709991004669 RPB11 interaction site [polypeptide binding]; other site 709991004670 RPB12 interaction site [polypeptide binding]; other site 709991004671 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 709991004672 RPB3 interaction site [polypeptide binding]; other site 709991004673 RPB1 interaction site [polypeptide binding]; other site 709991004674 RPB11 interaction site [polypeptide binding]; other site 709991004675 RPB10 interaction site [polypeptide binding]; other site 709991004676 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 709991004677 core dimer interface [polypeptide binding]; other site 709991004678 peripheral dimer interface [polypeptide binding]; other site 709991004679 L10 interface [polypeptide binding]; other site 709991004680 L11 interface [polypeptide binding]; other site 709991004681 putative EF-Tu interaction site [polypeptide binding]; other site 709991004682 putative EF-G interaction site [polypeptide binding]; other site 709991004683 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 709991004684 23S rRNA interface [nucleotide binding]; other site 709991004685 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 709991004686 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 709991004687 mRNA/rRNA interface [nucleotide binding]; other site 709991004688 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 709991004689 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 709991004690 23S rRNA interface [nucleotide binding]; other site 709991004691 L7/L12 interface [polypeptide binding]; other site 709991004692 putative thiostrepton binding site; other site 709991004693 L25 interface [polypeptide binding]; other site 709991004694 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 709991004695 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 709991004696 putative homodimer interface [polypeptide binding]; other site 709991004697 KOW motif; Region: KOW; cl00354 709991004698 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 709991004699 elongation factor Tu; Reviewed; Region: PRK12735 709991004700 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 709991004701 G1 box; other site 709991004702 GEF interaction site [polypeptide binding]; other site 709991004703 GTP/Mg2+ binding site [chemical binding]; other site 709991004704 Switch I region; other site 709991004705 G2 box; other site 709991004706 G3 box; other site 709991004707 Switch II region; other site 709991004708 G4 box; other site 709991004709 G5 box; other site 709991004710 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 709991004711 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 709991004712 Antibiotic Binding Site [chemical binding]; other site 709991004713 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; cl00250 709991004714 30S subunit binding site; other site 709991004715 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 709991004716 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 709991004717 active site 709991004718 DNA binding site [nucleotide binding] 709991004719 Int/Topo IB signature motif; other site 709991004720 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 709991004721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991004722 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 709991004723 Cation transport protein; Region: TrkH; cl10514 709991004724 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 709991004725 Peptidase family M23; Region: Peptidase_M23; pfam01551 709991004726 proteasome-activating nucleotidase; Provisional; Region: PRK03992 709991004727 Cell division protein ZapA; Region: ZapA; cl01146 709991004728 phosphodiesterase; Provisional; Region: PRK12704 709991004729 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 709991004730 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 709991004731 Mechanosensitive ion channel; Region: MS_channel; pfam00924 709991004732 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991004733 Protein export membrane protein; Region: SecD_SecF; cl14618 709991004734 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991004735 Protein export membrane protein; Region: SecD_SecF; cl14618 709991004736 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991004737 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991004738 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991004739 O-Antigen ligase; Region: Wzy_C; cl04850 709991004740 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 709991004741 TPR motif; other site 709991004742 binding surface 709991004743 TPR repeat; Region: TPR_11; pfam13414 709991004744 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991004745 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991004746 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004747 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004748 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991004749 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991004750 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991004751 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991004752 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 709991004753 ATP binding site [chemical binding]; other site 709991004754 G-X-G motif; other site 709991004755 Response regulator receiver domain; Region: Response_reg; pfam00072 709991004756 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 709991004757 active site 709991004758 phosphorylation site [posttranslational modification] 709991004759 intermolecular recognition site; other site 709991004760 dimerization interface [polypeptide binding]; other site 709991004761 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 709991004762 conserved cys residue [active] 709991004763 Predicted transcriptional regulator [Transcription]; Region: COG2378 709991004764 Helix-turn-helix domains; Region: HTH; cl00088 709991004765 WYL domain; Region: WYL; cl14852 709991004766 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004767 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 709991004768 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 709991004769 DNA primase domain-containing protein; Region: PHA02415 709991004770 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 709991004771 Virulence-associated protein E; Region: VirE; pfam05272 709991004772 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004773 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004774 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991004775 TIR domain; Region: TIR_2; cl15770 709991004776 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 709991004777 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 709991004778 Int/Topo IB signature motif; other site 709991004779 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 709991004780 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 709991004781 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 709991004782 Peptidase family C69; Region: Peptidase_C69; pfam03577 709991004783 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 709991004784 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 709991004785 Ligand Binding Site [chemical binding]; other site 709991004786 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 709991004787 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 709991004788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 709991004789 dimer interface [polypeptide binding]; other site 709991004790 conserved gate region; other site 709991004791 putative PBP binding loops; other site 709991004792 ABC-ATPase subunit interface; other site 709991004793 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 709991004794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 709991004795 dimer interface [polypeptide binding]; other site 709991004796 conserved gate region; other site 709991004797 putative PBP binding loops; other site 709991004798 ABC-ATPase subunit interface; other site 709991004799 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 709991004800 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 709991004801 Walker A/P-loop; other site 709991004802 ATP binding site [chemical binding]; other site 709991004803 Q-loop/lid; other site 709991004804 ABC transporter signature motif; other site 709991004805 Walker B; other site 709991004806 D-loop; other site 709991004807 H-loop/switch region; other site 709991004808 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 709991004809 PhoU domain; Region: PhoU; pfam01895 709991004810 PhoU domain; Region: PhoU; pfam01895 709991004811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991004812 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 709991004813 active site 709991004814 phosphorylation site [posttranslational modification] 709991004815 intermolecular recognition site; other site 709991004816 dimerization interface [polypeptide binding]; other site 709991004817 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 709991004818 DNA binding site [nucleotide binding] 709991004819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 709991004820 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991004821 dimer interface [polypeptide binding]; other site 709991004822 phosphorylation site [posttranslational modification] 709991004823 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 709991004824 ATP binding site [chemical binding]; other site 709991004825 Mg2+ binding site [ion binding]; other site 709991004826 G-X-G motif; other site 709991004827 NigD-like protein; Region: NigD; pfam12667 709991004828 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 709991004829 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 709991004830 active site 709991004831 DNA binding site [nucleotide binding] 709991004832 Int/Topo IB signature motif; other site 709991004833 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 709991004834 MPN+ (JAMM) motif; other site 709991004835 Zinc-binding site [ion binding]; other site 709991004836 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 709991004837 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991004838 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991004839 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991004840 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991004841 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 709991004842 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 709991004843 Substrate binding site [chemical binding]; other site 709991004844 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 709991004845 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991004846 4Fe-4S binding domain; Region: Fer4; cl02805 709991004847 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 709991004848 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 709991004849 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991004850 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991004851 PQQ-like domain; Region: PQQ_2; pfam13360 709991004852 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 709991004853 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 709991004854 Walker A/P-loop; other site 709991004855 ATP binding site [chemical binding]; other site 709991004856 Q-loop/lid; other site 709991004857 ABC transporter signature motif; other site 709991004858 Walker B; other site 709991004859 D-loop; other site 709991004860 H-loop/switch region; other site 709991004861 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991004862 ABC-ATPase subunit interface; other site 709991004863 dimer interface [polypeptide binding]; other site 709991004864 putative PBP binding regions; other site 709991004865 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 709991004866 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 709991004867 putative ligand binding site [chemical binding]; other site 709991004868 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 709991004869 homodimer interface [polypeptide binding]; other site 709991004870 Walker A motif; other site 709991004871 ATP binding site [chemical binding]; other site 709991004872 hydroxycobalamin binding site [chemical binding]; other site 709991004873 Walker B motif; other site 709991004874 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 709991004875 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 709991004876 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 709991004877 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 709991004878 Ligand binding site [chemical binding]; other site 709991004879 Electron transfer flavoprotein domain; Region: ETF; pfam01012 709991004880 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 709991004881 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 709991004882 FAD binding site [chemical binding]; other site 709991004883 homotetramer interface [polypeptide binding]; other site 709991004884 substrate binding pocket [chemical binding]; other site 709991004885 catalytic base [active] 709991004886 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 709991004887 substrate binding site [chemical binding]; other site 709991004888 THF binding site; other site 709991004889 zinc-binding site [ion binding]; other site 709991004890 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 709991004891 MarC family integral membrane protein; Region: MarC; cl00919 709991004892 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 709991004893 putative catalytic cysteine [active] 709991004894 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 709991004895 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 709991004896 active site 709991004897 NAD binding site [chemical binding]; other site 709991004898 metal binding site [ion binding]; metal-binding site 709991004899 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 709991004900 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 709991004901 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 709991004902 NifU-like domain; Region: NifU; cl00484 709991004903 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 709991004904 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 709991004905 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 709991004906 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991004907 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 709991004908 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 709991004909 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 709991004910 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991004911 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 709991004912 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 709991004913 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 709991004914 carboxyltransferase (CT) interaction site; other site 709991004915 biotinylation site [posttranslational modification]; other site 709991004916 Uncharacterized conserved protein [Function unknown]; Region: COG2966 709991004917 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 709991004918 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 709991004919 Helix-turn-helix domains; Region: HTH; cl00088 709991004920 metal binding site 2 [ion binding]; metal-binding site 709991004921 putative DNA binding helix; other site 709991004922 metal binding site 1 [ion binding]; metal-binding site 709991004923 dimer interface [polypeptide binding]; other site 709991004924 structural Zn2+ binding site [ion binding]; other site 709991004925 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 709991004926 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 709991004927 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991004928 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 709991004929 E-class dimer interface [polypeptide binding]; other site 709991004930 P-class dimer interface [polypeptide binding]; other site 709991004931 active site 709991004932 Cu2+ binding site [ion binding]; other site 709991004933 Zn2+ binding site [ion binding]; other site 709991004934 Clp protease; Region: CLP_protease; pfam00574 709991004935 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 709991004936 oligomer interface [polypeptide binding]; other site 709991004937 active site residues [active] 709991004938 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 709991004939 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 709991004940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991004941 Walker A motif; other site 709991004942 ATP binding site [chemical binding]; other site 709991004943 Walker B motif; other site 709991004944 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 709991004945 Transposase domain (DUF772); Region: DUF772; cl15789 709991004946 Transposase domain (DUF772); Region: DUF772; cl15789 709991004947 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991004948 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991004949 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 709991004950 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991004951 active site 709991004952 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 709991004953 active site 709991004954 Ap6A binding site [chemical binding]; other site 709991004955 nudix motif; other site 709991004956 metal binding site [ion binding]; metal-binding site 709991004957 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991004958 Phosphotransferase enzyme family; Region: APH; pfam01636 709991004959 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 709991004960 peptide chain release factor 2; Validated; Region: prfB; PRK00578 709991004961 RF-1 domain; Region: RF-1; cl02875 709991004962 RF-1 domain; Region: RF-1; cl02875 709991004963 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 709991004964 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 709991004965 putative ribose interaction site [chemical binding]; other site 709991004966 putative ADP binding site [chemical binding]; other site 709991004967 Glutamine amidotransferase [Amino acid transport and metabolism]; Region: HisH; COG0118 709991004968 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 709991004969 predicted active site [active] 709991004970 catalytic triad [active] 709991004971 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 709991004972 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 709991004973 active site 709991004974 multimer interface [polypeptide binding]; other site 709991004975 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 709991004976 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 709991004977 active site 709991004978 catalytic residues [active] 709991004979 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 709991004980 Helix-turn-helix domains; Region: HTH; cl00088 709991004981 Helix-turn-helix domains; Region: HTH; cl00088 709991004982 Integrase core domain; Region: rve; cl01316 709991004983 galactokinase; Provisional; Region: PRK05322 709991004984 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 709991004985 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 709991004986 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 709991004987 putative transporter; Provisional; Region: PRK10484 709991004988 Sodium:solute symporter family; Region: SSF; cl00456 709991004989 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 709991004990 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 709991004991 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991004992 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 709991004993 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991004994 DNA binding residues [nucleotide binding] 709991004995 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 709991004996 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 709991004997 AIR carboxylase; Region: AIRC; cl00310 709991004998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991004999 active site 709991005000 GTPase CgtA; Reviewed; Region: obgE; PRK12299 709991005001 GTP1/OBG; Region: GTP1_OBG; pfam01018 709991005002 Obg GTPase; Region: Obg; cd01898 709991005003 G1 box; other site 709991005004 GTP/Mg2+ binding site [chemical binding]; other site 709991005005 Switch I region; other site 709991005006 G2 box; other site 709991005007 G3 box; other site 709991005008 Switch II region; other site 709991005009 G4 box; other site 709991005010 G5 box; other site 709991005011 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 709991005012 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 709991005013 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 709991005014 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 709991005015 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 709991005016 substrate binding site [chemical binding]; other site 709991005017 glutamase interaction surface [polypeptide binding]; other site 709991005018 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 709991005019 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 709991005020 catalytic residues [active] 709991005021 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 709991005022 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 709991005023 putative active site [active] 709991005024 oxyanion strand; other site 709991005025 catalytic triad [active] 709991005026 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 709991005027 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 709991005028 active site 709991005029 motif I; other site 709991005030 motif II; other site 709991005031 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 709991005032 putative active site pocket [active] 709991005033 4-fold oligomerization interface [polypeptide binding]; other site 709991005034 metal binding residues [ion binding]; metal-binding site 709991005035 3-fold/trimer interface [polypeptide binding]; other site 709991005036 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 709991005037 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 709991005038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991005039 homodimer interface [polypeptide binding]; other site 709991005040 catalytic residue [active] 709991005041 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 709991005042 histidinol dehydrogenase; Region: hisD; TIGR00069 709991005043 NAD binding site [chemical binding]; other site 709991005044 dimerization interface [polypeptide binding]; other site 709991005045 product binding site; other site 709991005046 substrate binding site [chemical binding]; other site 709991005047 zinc binding site [ion binding]; other site 709991005048 catalytic residues [active] 709991005049 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 709991005050 ATP phosphoribosyltransferase; Region: HisG; cl15266 709991005051 HisG, C-terminal domain; Region: HisG_C; cl06867 709991005052 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 709991005053 O-Antigen ligase; Region: Wzy_C; cl04850 709991005054 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 709991005055 binding surface 709991005056 TPR motif; other site 709991005057 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 709991005058 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 709991005059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991005060 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 709991005061 ATP binding site [chemical binding]; other site 709991005062 Mg2+ binding site [ion binding]; other site 709991005063 G-X-G motif; other site 709991005064 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991005065 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 709991005066 active site 709991005067 phosphorylation site [posttranslational modification] 709991005068 intermolecular recognition site; other site 709991005069 dimerization interface [polypeptide binding]; other site 709991005070 Helix-turn-helix domains; Region: HTH; cl00088 709991005071 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 709991005072 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 709991005073 putative active site [active] 709991005074 catalytic residue [active] 709991005075 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 709991005076 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 709991005077 5S rRNA interface [nucleotide binding]; other site 709991005078 CTC domain interface [polypeptide binding]; other site 709991005079 L16 interface [polypeptide binding]; other site 709991005080 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 709991005081 4Fe-4S binding domain; Region: Fer4; cl02805 709991005082 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 709991005083 NAD synthetase; Provisional; Region: PRK13981 709991005084 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 709991005085 multimer interface [polypeptide binding]; other site 709991005086 active site 709991005087 catalytic triad [active] 709991005088 protein interface 1 [polypeptide binding]; other site 709991005089 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 709991005090 homodimer interface [polypeptide binding]; other site 709991005091 NAD binding pocket [chemical binding]; other site 709991005092 ATP binding pocket [chemical binding]; other site 709991005093 Mg binding site [ion binding]; other site 709991005094 active-site loop [active] 709991005095 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 709991005096 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 709991005097 ligand binding site [chemical binding]; other site 709991005098 flexible hinge region; other site 709991005099 Uncharacterized conserved protein [Function unknown]; Region: COG1284 709991005100 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 709991005101 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 709991005102 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 709991005103 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991005104 active site 709991005105 HIGH motif; other site 709991005106 nucleotide binding site [chemical binding]; other site 709991005107 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 709991005108 KMSKS motif; other site 709991005109 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 709991005110 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 709991005111 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 709991005112 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 709991005113 substrate binding pocket [chemical binding]; other site 709991005114 membrane-bound complex binding site; other site 709991005115 hinge residues; other site 709991005116 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 709991005117 N-acetyl-D-glucosamine binding site [chemical binding]; other site 709991005118 catalytic residue [active] 709991005119 FeoA domain; Region: FeoA; cl00838 709991005120 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 709991005121 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 709991005122 G1 box; other site 709991005123 GTP/Mg2+ binding site [chemical binding]; other site 709991005124 Switch I region; other site 709991005125 G2 box; other site 709991005126 G3 box; other site 709991005127 Switch II region; other site 709991005128 G4 box; other site 709991005129 G5 box; other site 709991005130 Nucleoside recognition; Region: Gate; cl00486 709991005131 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 709991005132 Nucleoside recognition; Region: Gate; cl00486 709991005133 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 709991005134 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 709991005135 Ligand Binding Site [chemical binding]; other site 709991005136 Predicted membrane protein [Function unknown]; Region: COG1470 709991005137 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 709991005138 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 709991005139 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 709991005140 Walker A/P-loop; other site 709991005141 ATP binding site [chemical binding]; other site 709991005142 Q-loop/lid; other site 709991005143 ABC transporter signature motif; other site 709991005144 Walker B; other site 709991005145 D-loop; other site 709991005146 H-loop/switch region; other site 709991005147 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991005148 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 709991005149 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 709991005150 GDP-binding site [chemical binding]; other site 709991005151 ACT binding site; other site 709991005152 IMP binding site; other site 709991005153 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 709991005154 metal binding site 2 [ion binding]; metal-binding site 709991005155 putative DNA binding helix; other site 709991005156 metal binding site 1 [ion binding]; metal-binding site 709991005157 dimer interface [polypeptide binding]; other site 709991005158 structural Zn2+ binding site [ion binding]; other site 709991005159 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 709991005160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 709991005161 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 709991005162 synthetase active site [active] 709991005163 NTP binding site [chemical binding]; other site 709991005164 metal binding site [ion binding]; metal-binding site 709991005165 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 709991005166 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 709991005167 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 709991005168 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 709991005169 periplasmic chaperone; Provisional; Region: PRK10780 709991005170 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 709991005171 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 709991005172 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 709991005173 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 709991005174 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 709991005175 Surface antigen; Region: Bac_surface_Ag; cl03097 709991005176 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 709991005177 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 709991005178 catalytic residue [active] 709991005179 putative FPP diphosphate binding site; other site 709991005180 putative FPP binding hydrophobic cleft; other site 709991005181 dimer interface [polypeptide binding]; other site 709991005182 putative IPP diphosphate binding site; other site 709991005183 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 709991005184 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 709991005185 FOG: CBS domain [General function prediction only]; Region: COG0517 709991005186 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 709991005187 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 709991005188 Domain of unknown function (DUF368); Region: DUF368; cl00893 709991005189 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 709991005190 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 709991005191 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 709991005192 shikimate binding site; other site 709991005193 NAD(P) binding site [chemical binding]; other site 709991005194 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 709991005195 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 709991005196 dimer interface [polypeptide binding]; other site 709991005197 PYR/PP interface [polypeptide binding]; other site 709991005198 TPP binding site [chemical binding]; other site 709991005199 substrate binding site [chemical binding]; other site 709991005200 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 709991005201 TPP-binding site; other site 709991005202 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 709991005203 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 709991005204 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 709991005205 Ligand binding site [chemical binding]; other site 709991005206 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 709991005207 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 709991005208 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 709991005209 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 709991005210 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 709991005211 active site 709991005212 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 709991005213 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 709991005214 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991005215 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991005216 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 709991005217 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 709991005218 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 709991005219 protein binding site [polypeptide binding]; other site 709991005220 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 709991005221 Domain interface; other site 709991005222 Peptide binding site; other site 709991005223 Active site tetrad [active] 709991005224 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 709991005225 motif 1; other site 709991005226 dimer interface [polypeptide binding]; other site 709991005227 active site 709991005228 motif 2; other site 709991005229 motif 3; other site 709991005230 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 709991005231 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 709991005232 putative metal binding residues [ion binding]; other site 709991005233 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 709991005234 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 709991005235 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991005236 ABC-ATPase subunit interface; other site 709991005237 dimer interface [polypeptide binding]; other site 709991005238 putative PBP binding regions; other site 709991005239 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 709991005240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991005241 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 709991005242 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 709991005243 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 709991005244 trimer interface [polypeptide binding]; other site 709991005245 active site 709991005246 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 709991005247 homotrimer interaction site [polypeptide binding]; other site 709991005248 zinc binding site [ion binding]; other site 709991005249 CDP-binding sites; other site 709991005250 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 709991005251 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 709991005252 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 709991005253 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991005254 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 709991005255 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 709991005256 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 709991005257 Ligand binding site; other site 709991005258 Putative Catalytic site; other site 709991005259 DXD motif; other site 709991005260 dihydroorotase; Reviewed; Region: PRK09236 709991005261 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 709991005262 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 709991005263 active site 709991005264 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 709991005265 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 709991005266 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991005267 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 709991005268 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 709991005269 PAS fold; Region: PAS_4; pfam08448 709991005270 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 709991005271 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991005272 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991005273 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991005274 polycystin cation channel protein; Region: PCC; TIGR00864 709991005275 polycystin cation channel protein; Region: PCC; TIGR00864 709991005276 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991005277 FlgD Ig-like domain; Region: FlgD_ig; cl15790 709991005278 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 709991005279 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 709991005280 GAF domain; Region: GAF; cl15785 709991005281 PAS domain S-box; Region: sensory_box; TIGR00229 709991005282 putative diguanylate cyclase; Provisional; Region: PRK09776 709991005283 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991005284 dimer interface [polypeptide binding]; other site 709991005285 phosphorylation site [posttranslational modification] 709991005286 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 709991005287 ATP binding site [chemical binding]; other site 709991005288 Mg2+ binding site [ion binding]; other site 709991005289 G-X-G motif; other site 709991005290 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 709991005291 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 709991005292 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 709991005293 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 709991005294 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 709991005295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991005296 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 709991005297 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 709991005298 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 709991005299 Clp amino terminal domain; Region: Clp_N; pfam02861 709991005300 Clp amino terminal domain; Region: Clp_N; pfam02861 709991005301 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991005302 Walker A motif; other site 709991005303 ATP binding site [chemical binding]; other site 709991005304 Walker B motif; other site 709991005305 arginine finger; other site 709991005306 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991005307 Walker A motif; other site 709991005308 ATP binding site [chemical binding]; other site 709991005309 Walker B motif; other site 709991005310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 709991005311 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 709991005312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 709991005313 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 709991005314 TIR domain; Region: TIR_2; cl15770 709991005315 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 709991005316 elongation factor G; Reviewed; Region: PRK12740 709991005317 G1 box; other site 709991005318 putative GEF interaction site [polypeptide binding]; other site 709991005319 GTP/Mg2+ binding site [chemical binding]; other site 709991005320 Switch I region; other site 709991005321 G2 box; other site 709991005322 G3 box; other site 709991005323 Switch II region; other site 709991005324 G4 box; other site 709991005325 G5 box; other site 709991005326 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 709991005327 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 709991005328 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 709991005329 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 709991005330 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991005331 FecR protein; Region: FecR; pfam04773 709991005332 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005333 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005334 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005335 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005336 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005337 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005338 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991005339 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991005340 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991005341 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991005342 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991005343 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991005344 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 709991005345 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005346 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005347 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991005348 DNA binding residues [nucleotide binding] 709991005349 S-adenosylmethionine synthetase; Validated; Region: PRK05250 709991005350 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 709991005351 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 709991005352 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 709991005353 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 709991005354 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 709991005355 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 709991005356 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 709991005357 Serine carboxypeptidase S28; Region: Peptidase_S28; cl15279 709991005358 multidrug efflux protein; Reviewed; Region: PRK01766 709991005359 MatE; Region: MatE; cl10513 709991005360 MatE; Region: MatE; cl10513 709991005361 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 709991005362 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 709991005363 motif II; other site 709991005364 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005365 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 709991005366 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005367 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 709991005368 ligand binding site [chemical binding]; other site 709991005369 flexible hinge region; other site 709991005370 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 709991005371 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 709991005372 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 709991005373 protein disulfide isomerases, eukaryotic; Region: ER_PDI_fam; TIGR01130 709991005374 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 709991005375 catalytic residues [active] 709991005376 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005377 catalytic residues [active] 709991005378 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005379 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005380 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005381 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005382 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005383 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005384 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005385 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991005386 FecR protein; Region: FecR; pfam04773 709991005387 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005388 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005389 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005390 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005391 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991005392 DNA binding residues [nucleotide binding] 709991005393 TIR domain; Region: TIR_2; cl15770 709991005394 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 709991005395 MORN repeat; Region: MORN; cl14787 709991005396 MORN repeat; Region: MORN; cl14787 709991005397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 709991005398 MORN repeat; Region: MORN; cl14787 709991005399 MORN repeat; Region: MORN; cl14787 709991005400 MORN repeat; Region: MORN; cl14787 709991005401 MORN repeat; Region: MORN; cl14787 709991005402 MORN repeat; Region: MORN; cl14787 709991005403 MORN repeat; Region: MORN; cl14787 709991005404 MORN repeat; Region: MORN; cl14787 709991005405 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 709991005406 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991005407 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991005408 ABC transporter; Region: ABC_tran_2; pfam12848 709991005409 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 709991005410 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 709991005411 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 709991005412 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991005413 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991005414 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991005415 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 709991005416 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991005417 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991005418 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991005419 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 709991005420 Transposase domain (DUF772); Region: DUF772; cl15789 709991005421 Transposase domain (DUF772); Region: DUF772; cl15789 709991005422 Archaeal ATPase; Region: Arch_ATPase; pfam01637 709991005423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005424 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 709991005425 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991005426 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005427 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991005428 DNA binding residues [nucleotide binding] 709991005429 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 709991005430 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 709991005431 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005432 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991005433 Helix-turn-helix domains; Region: HTH; cl00088 709991005434 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 709991005435 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 709991005436 homodimer interface [polypeptide binding]; other site 709991005437 substrate-cofactor binding pocket; other site 709991005438 catalytic residue [active] 709991005439 Peptidase S46; Region: Peptidase_S46; pfam10459 709991005440 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 709991005441 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 709991005442 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 709991005443 FeS/SAM binding site; other site 709991005444 glutamate dehydrogenase; Provisional; Region: PRK09414 709991005445 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 709991005446 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 709991005447 NAD(P) binding site [chemical binding]; other site 709991005448 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 709991005449 Transposase [DNA replication, recombination, and repair]; Region: COG5433 709991005450 Transposase [DNA replication, recombination, and repair]; Region: COG5433 709991005451 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 709991005452 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 709991005453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991005454 Uncharacterized conserved protein [Function unknown]; Region: COG5361 709991005455 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 709991005456 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 709991005457 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 709991005458 Transposase [DNA replication, recombination, and repair]; Region: COG5433 709991005459 Transposase [DNA replication, recombination, and repair]; Region: COG5433 709991005460 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 709991005461 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 709991005462 active site 709991005463 trimer interface [polypeptide binding]; other site 709991005464 allosteric site; other site 709991005465 active site lid [active] 709991005466 hexamer (dimer of trimers) interface [polypeptide binding]; other site 709991005467 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 709991005468 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 709991005469 active site 709991005470 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 709991005471 metal-binding site [ion binding] 709991005472 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005473 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 709991005474 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991005475 N-terminal plug; other site 709991005476 ligand-binding site [chemical binding]; other site 709991005477 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991005478 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005479 catalytic residues [active] 709991005480 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 709991005481 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 709991005482 putative active site [active] 709991005483 putative metal binding site [ion binding]; other site 709991005484 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 709991005485 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 709991005486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005487 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 709991005488 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 709991005489 dimer interface [polypeptide binding]; other site 709991005490 substrate binding site [chemical binding]; other site 709991005491 metal binding sites [ion binding]; metal-binding site 709991005492 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 709991005493 dimer interface [polypeptide binding]; other site 709991005494 active site 709991005495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 709991005496 Helix-turn-helix domains; Region: HTH; cl00088 709991005497 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 709991005498 dimerization interface [polypeptide binding]; other site 709991005499 chaperone protein DnaJ; Provisional; Region: PRK14289 709991005500 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 709991005501 HSP70 interaction site [polypeptide binding]; other site 709991005502 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 709991005503 substrate binding site [polypeptide binding]; other site 709991005504 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 709991005505 Zn binding sites [ion binding]; other site 709991005506 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 709991005507 dimer interface [polypeptide binding]; other site 709991005508 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 709991005509 dimer interface [polypeptide binding]; other site 709991005510 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 709991005511 hypothetical protein; Reviewed; Region: PRK00024 709991005512 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 709991005513 MPN+ (JAMM) motif; other site 709991005514 Zinc-binding site [ion binding]; other site 709991005515 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 709991005516 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991005517 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991005518 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 709991005519 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 709991005520 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991005521 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005522 catalytic residues [active] 709991005523 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991005524 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005525 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005526 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005527 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005528 FecR protein; Region: FecR; pfam04773 709991005529 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005530 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005531 Helix-turn-helix domains; Region: HTH; cl00088 709991005532 DNA binding residues [nucleotide binding] 709991005533 biotin synthase; Provisional; Region: PRK07094 709991005534 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 709991005535 FeS/SAM binding site; other site 709991005536 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 709991005537 LysE type translocator; Region: LysE; cl00565 709991005538 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 709991005539 putative acyl-acceptor binding pocket; other site 709991005540 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991005541 Protein of unknown function (DUF721); Region: DUF721; cl02324 709991005542 recombination protein F; Reviewed; Region: recF; PRK00064 709991005543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005544 Walker A/P-loop; other site 709991005545 ATP binding site [chemical binding]; other site 709991005546 Q-loop/lid; other site 709991005547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005548 ABC transporter signature motif; other site 709991005549 Walker B; other site 709991005550 D-loop; other site 709991005551 H-loop/switch region; other site 709991005552 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 709991005553 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 709991005554 binding surface 709991005555 TPR motif; other site 709991005556 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991005557 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005558 catalytic residues [active] 709991005559 Transposase [DNA replication, recombination, and repair]; Region: COG5421 709991005560 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 709991005561 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 709991005562 TPP-binding site [chemical binding]; other site 709991005563 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 709991005564 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 709991005565 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 709991005566 dimer interface [polypeptide binding]; other site 709991005567 PYR/PP interface [polypeptide binding]; other site 709991005568 TPP binding site [chemical binding]; other site 709991005569 substrate binding site [chemical binding]; other site 709991005570 Mechanosensitive ion channel; Region: MS_channel; pfam00924 709991005571 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 709991005572 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 709991005573 enolase; Provisional; Region: eno; PRK00077 709991005574 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 709991005575 dimer interface [polypeptide binding]; other site 709991005576 metal binding site [ion binding]; metal-binding site 709991005577 substrate binding pocket [chemical binding]; other site 709991005578 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 709991005579 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 709991005580 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 709991005581 alphaNTD - beta interaction site [polypeptide binding]; other site 709991005582 alphaNTD homodimer interface [polypeptide binding]; other site 709991005583 alphaNTD - beta' interaction site [polypeptide binding]; other site 709991005584 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 709991005585 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 709991005586 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 709991005587 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 709991005588 RNA binding surface [nucleotide binding]; other site 709991005589 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 709991005590 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 709991005591 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 709991005592 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 709991005593 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 709991005594 rRNA binding site [nucleotide binding]; other site 709991005595 predicted 30S ribosome binding site; other site 709991005596 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 709991005597 active site 709991005598 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 709991005599 SecY translocase; Region: SecY; pfam00344 709991005600 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 709991005601 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 709991005602 23S rRNA binding site [nucleotide binding]; other site 709991005603 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 709991005604 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 709991005605 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 709991005606 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 709991005607 23S rRNA interface [nucleotide binding]; other site 709991005608 5S rRNA interface [nucleotide binding]; other site 709991005609 L27 interface [polypeptide binding]; other site 709991005610 L5 interface [polypeptide binding]; other site 709991005611 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 709991005612 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 709991005613 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 709991005614 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 709991005615 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 709991005616 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 709991005617 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 709991005618 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 709991005619 KOW motif; Region: KOW; cl00354 709991005620 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 709991005621 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 709991005622 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 709991005623 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 709991005624 23S rRNA interface [nucleotide binding]; other site 709991005625 putative translocon interaction site; other site 709991005626 signal recognition particle (SRP54) interaction site; other site 709991005627 L23 interface [polypeptide binding]; other site 709991005628 trigger factor interaction site; other site 709991005629 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 709991005630 23S rRNA interface [nucleotide binding]; other site 709991005631 5S rRNA interface [nucleotide binding]; other site 709991005632 putative antibiotic binding site [chemical binding]; other site 709991005633 L25 interface [polypeptide binding]; other site 709991005634 L27 interface [polypeptide binding]; other site 709991005635 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 709991005636 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 709991005637 G-X-X-G motif; other site 709991005638 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 709991005639 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 709991005640 putative translocon binding site; other site 709991005641 protein-rRNA interface [nucleotide binding]; other site 709991005642 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 709991005643 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 709991005644 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 709991005645 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 709991005646 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 709991005647 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 709991005648 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 709991005649 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 709991005650 elongation factor G; Reviewed; Region: PRK12739 709991005651 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 709991005652 G1 box; other site 709991005653 putative GEF interaction site [polypeptide binding]; other site 709991005654 GTP/Mg2+ binding site [chemical binding]; other site 709991005655 Switch I region; other site 709991005656 G2 box; other site 709991005657 G3 box; other site 709991005658 Switch II region; other site 709991005659 G4 box; other site 709991005660 G5 box; other site 709991005661 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 709991005662 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 709991005663 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 709991005664 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 709991005665 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 709991005666 S17 interaction site [polypeptide binding]; other site 709991005667 S8 interaction site; other site 709991005668 16S rRNA interaction site [nucleotide binding]; other site 709991005669 streptomycin interaction site [chemical binding]; other site 709991005670 23S rRNA interaction site [nucleotide binding]; other site 709991005671 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 709991005672 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005673 potential frameshift: common BLAST hit: gi|150006492|ref|YP_001301236.1| transposase 709991005674 Transposase domain (DUF772); Region: DUF772; cl15789 709991005675 Transposase domain (DUF772); Region: DUF772; cl15789 709991005676 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991005677 FecR protein; Region: FecR; pfam04773 709991005678 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991005681 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991005682 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005683 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005684 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005685 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005686 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005687 FecR protein; Region: FecR; pfam04773 709991005688 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991005689 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005690 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991005691 DNA binding residues [nucleotide binding] 709991005692 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005693 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991005694 DNA binding residues [nucleotide binding] 709991005695 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005696 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005697 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005698 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005699 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005700 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005701 FecR protein; Region: FecR; pfam04773 709991005702 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991005703 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 709991005704 catalytic residues [active] 709991005705 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 709991005706 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 709991005707 catalytic residues [active] 709991005708 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991005709 Walker A motif; other site 709991005710 ATP binding site [chemical binding]; other site 709991005711 Walker B motif; other site 709991005712 arginine finger; other site 709991005713 Helix-turn-helix domains; Region: HTH; cl00088 709991005714 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005716 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991005717 DNA binding residues [nucleotide binding] 709991005718 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 709991005719 FecR protein; Region: FecR; pfam04773 709991005720 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005721 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005722 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005723 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005724 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005725 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005726 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005727 catalytic residues [active] 709991005728 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991005729 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005730 catalytic residues [active] 709991005731 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991005732 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991005733 catalytic residues [active] 709991005734 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 709991005735 Lipopolysaccharide-assembly; Region: LptE; cl01125 709991005736 Preprotein translocase SecG subunit; Region: SecG; cl09123 709991005737 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 709991005738 oligomerisation interface [polypeptide binding]; other site 709991005739 mobile loop; other site 709991005740 roof hairpin; other site 709991005741 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 709991005742 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 709991005743 ring oligomerisation interface [polypeptide binding]; other site 709991005744 ATP/Mg binding site [chemical binding]; other site 709991005745 stacking interactions; other site 709991005746 hinge regions; other site 709991005747 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 709991005748 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 709991005749 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 709991005750 PhoU domain; Region: PhoU; pfam01895 709991005751 glycyl-tRNA synthetase; Provisional; Region: PRK04173 709991005752 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 709991005753 motif 1; other site 709991005754 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 709991005755 active site 709991005756 motif 2; other site 709991005757 motif 3; other site 709991005758 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 709991005759 anticodon binding site; other site 709991005760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991005761 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 709991005762 ATP binding site [chemical binding]; other site 709991005763 Mg2+ binding site [ion binding]; other site 709991005764 G-X-G motif; other site 709991005765 Response regulator receiver domain; Region: Response_reg; pfam00072 709991005766 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 709991005767 active site 709991005768 phosphorylation site [posttranslational modification] 709991005769 intermolecular recognition site; other site 709991005770 dimerization interface [polypeptide binding]; other site 709991005771 Porin subfamily; Region: Porin_2; pfam02530 709991005772 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 709991005773 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 709991005774 active site 709991005775 Riboflavin kinase; Region: Flavokinase; cl03312 709991005776 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 709991005777 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 709991005778 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 709991005779 active site 709991005780 dimer interface [polypeptide binding]; other site 709991005781 effector binding site; other site 709991005782 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 709991005783 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 709991005784 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 709991005785 RimM N-terminal domain; Region: RimM; pfam01782 709991005786 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 709991005787 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 709991005788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 709991005789 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 709991005790 active site 709991005791 catalytic residues [active] 709991005792 FlgD Ig-like domain; Region: FlgD_ig; cl15790 709991005793 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005794 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005795 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 709991005796 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 709991005797 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 709991005798 Walker A/P-loop; other site 709991005799 ATP binding site [chemical binding]; other site 709991005800 Q-loop/lid; other site 709991005801 ABC transporter signature motif; other site 709991005802 Walker B; other site 709991005803 D-loop; other site 709991005804 H-loop/switch region; other site 709991005805 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991005806 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991005807 Calx-beta domain; Region: Calx-beta; cl02522 709991005808 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005809 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991005810 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005811 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005812 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991005813 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005814 FecR protein; Region: FecR; pfam04773 709991005815 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005816 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005817 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991005818 DNA binding residues [nucleotide binding] 709991005819 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991005820 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 709991005821 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 709991005822 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 709991005823 putative ligand binding site [chemical binding]; other site 709991005824 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991005825 ABC-ATPase subunit interface; other site 709991005826 dimer interface [polypeptide binding]; other site 709991005827 putative PBP binding regions; other site 709991005828 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 709991005829 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 709991005830 Walker A/P-loop; other site 709991005831 ATP binding site [chemical binding]; other site 709991005832 Q-loop/lid; other site 709991005833 ABC transporter signature motif; other site 709991005834 Walker B; other site 709991005835 D-loop; other site 709991005836 H-loop/switch region; other site 709991005837 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991005838 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 709991005839 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 709991005840 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 709991005841 CbiD; Region: CbiD; cl00828 709991005842 Transposase IS200 like; Region: Y1_Tnp; cl00848 709991005843 Helix-turn-helix domains; Region: HTH; cl00088 709991005844 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 709991005845 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 709991005846 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 709991005847 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 709991005848 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991005849 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991005850 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 709991005851 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 709991005852 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 709991005853 active site 709991005854 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 709991005855 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 709991005856 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991005857 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991005858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991005859 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 709991005860 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 709991005861 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 709991005862 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 709991005863 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 709991005864 Precorrin-8X methylmutase; Region: CbiC; pfam02570 709991005865 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 709991005866 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991005867 N-terminal plug; other site 709991005868 ligand-binding site [chemical binding]; other site 709991005869 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 709991005870 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 709991005871 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 709991005872 active site 709991005873 C-terminal domain interface [polypeptide binding]; other site 709991005874 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 709991005875 active site 709991005876 N-terminal domain interface [polypeptide binding]; other site 709991005877 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 709991005878 HsdM N-terminal domain; Region: HsdM_N; pfam12161 709991005879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991005880 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 709991005881 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 709991005882 ORF6N domain; Region: ORF6N; pfam10543 709991005883 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991005884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005885 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 709991005886 Histidine kinase; Region: His_kinase; pfam06580 709991005887 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 709991005888 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 709991005889 active site 709991005890 phosphorylation site [posttranslational modification] 709991005891 intermolecular recognition site; other site 709991005892 dimerization interface [polypeptide binding]; other site 709991005893 LytTr DNA-binding domain; Region: LytTR; cl04498 709991005894 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 709991005895 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 709991005896 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 709991005897 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 709991005898 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 709991005899 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 709991005900 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 709991005901 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005902 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 709991005903 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991005904 N-terminal plug; other site 709991005905 ligand-binding site [chemical binding]; other site 709991005906 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 709991005907 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 709991005908 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005909 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 709991005910 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991005911 N-terminal plug; other site 709991005912 ligand-binding site [chemical binding]; other site 709991005913 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 709991005914 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 709991005915 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 709991005916 active site 709991005917 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991005918 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991005919 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 709991005920 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 709991005921 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 709991005922 active site 709991005923 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 709991005924 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005925 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 709991005926 catalytic triad [active] 709991005927 CobD/Cbib protein; Region: CobD_Cbib; cl00561 709991005928 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 709991005929 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 709991005930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991005931 homodimer interface [polypeptide binding]; other site 709991005932 catalytic residue [active] 709991005933 cobyric acid synthase; Provisional; Region: PRK00784 709991005934 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991005935 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 709991005936 catalytic triad [active] 709991005937 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 709991005938 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 709991005939 catalytic core [active] 709991005940 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 709991005941 Probable transposase; Region: OrfB_IS605; pfam01385 709991005942 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 709991005943 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991005944 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991005945 ligand binding site [chemical binding]; other site 709991005946 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991005947 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991005948 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991005949 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005950 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991005951 FecR protein; Region: FecR; pfam04773 709991005952 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991005953 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991005954 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991005955 DNA binding residues [nucleotide binding] 709991005956 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 709991005957 homotrimer interface [polypeptide binding]; other site 709991005958 Walker A motif; other site 709991005959 GTP binding site [chemical binding]; other site 709991005960 Walker B motif; other site 709991005961 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 709991005962 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 709991005963 putative dimer interface [polypeptide binding]; other site 709991005964 active site pocket [active] 709991005965 putative cataytic base [active] 709991005966 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 709991005967 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 709991005968 catalytic core [active] 709991005969 Abi-like protein; Region: Abi_2; cl01988 709991005970 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991005971 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 709991005972 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 709991005973 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 709991005974 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991005975 N-terminal plug; other site 709991005976 ligand-binding site [chemical binding]; other site 709991005977 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 709991005978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991005979 CoA-ligase; Region: Ligase_CoA; cl02894 709991005980 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991005981 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 709991005982 AMP binding site [chemical binding]; other site 709991005983 metal binding site [ion binding]; metal-binding site 709991005984 active site 709991005985 Pyrococcus aspartate kinase subunit, putative; Region: AspKin_pair; TIGR02078 709991005986 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 709991005987 nucleotide binding site [chemical binding]; other site 709991005988 substrate binding site [chemical binding]; other site 709991005989 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 709991005990 Ligand binding site; other site 709991005991 Putative Catalytic site; other site 709991005992 DXD motif; other site 709991005993 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 709991005994 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991005995 active site 709991005996 HIGH motif; other site 709991005997 nucleotide binding site [chemical binding]; other site 709991005998 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991005999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991006000 active site 709991006001 KMSKS motif; other site 709991006002 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 709991006003 tRNA binding surface [nucleotide binding]; other site 709991006004 anticodon binding site; other site 709991006005 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 709991006006 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 709991006007 DNA topoisomerase I; Validated; Region: PRK06599 709991006008 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 709991006009 active site 709991006010 interdomain interaction site; other site 709991006011 putative metal-binding site [ion binding]; other site 709991006012 nucleotide binding site [chemical binding]; other site 709991006013 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 709991006014 domain I; other site 709991006015 DNA binding groove [nucleotide binding] 709991006016 phosphate binding site [ion binding]; other site 709991006017 domain II; other site 709991006018 domain III; other site 709991006019 nucleotide binding site [chemical binding]; other site 709991006020 catalytic site [active] 709991006021 domain IV; other site 709991006022 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 709991006023 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 709991006024 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 709991006025 SurA N-terminal domain; Region: SurA_N_3; cl07813 709991006026 PPIC-type PPIASE domain; Region: Rotamase; cl08278 709991006027 PPIC-type PPIASE domain; Region: Rotamase; cl08278 709991006028 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991006029 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991006030 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006031 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006032 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006033 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 709991006034 active site 709991006035 catalytic site [active] 709991006036 substrate binding site [chemical binding]; other site 709991006037 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 709991006038 Fic/DOC family; Region: Fic; cl00960 709991006039 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 709991006040 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 709991006041 active site 709991006042 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 709991006043 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 709991006044 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991006045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006046 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 709991006047 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 709991006048 active site 709991006049 homodimer interface [polypeptide binding]; other site 709991006050 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 709991006051 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 709991006052 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 709991006053 active site 709991006054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 709991006055 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 709991006056 putative ADP-binding pocket [chemical binding]; other site 709991006057 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 709991006058 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 709991006059 active site 709991006060 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 709991006061 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991006062 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991006063 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 709991006064 Peptidase family U32; Region: Peptidase_U32; cl03113 709991006065 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 709991006066 Helix-turn-helix domains; Region: HTH; cl00088 709991006067 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 709991006068 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991006069 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991006070 ribosome recycling factor; Reviewed; Region: frr; PRK00083 709991006071 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 709991006072 hinge region; other site 709991006073 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 709991006074 Ligand binding site; other site 709991006075 oligomer interface; other site 709991006076 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 709991006077 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 709991006078 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 709991006079 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 709991006080 dimer interface [polypeptide binding]; other site 709991006081 active site 709991006082 CoA binding pocket [chemical binding]; other site 709991006083 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 709991006084 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 709991006085 GTPase RsgA; Reviewed; Region: PRK00098 709991006086 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 709991006087 RNA binding site [nucleotide binding]; other site 709991006088 homodimer interface [polypeptide binding]; other site 709991006089 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 709991006090 GTPase/Zn-binding domain interface [polypeptide binding]; other site 709991006091 GTP/Mg2+ binding site [chemical binding]; other site 709991006092 G4 box; other site 709991006093 G5 box; other site 709991006094 G1 box; other site 709991006095 Switch I region; other site 709991006096 G2 box; other site 709991006097 G3 box; other site 709991006098 Switch II region; other site 709991006099 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 709991006100 active site 709991006101 dimerization interface [polypeptide binding]; other site 709991006102 Recombination protein O N terminal; Region: RecO_N; cl15812 709991006103 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 709991006104 Recombination protein O C terminal; Region: RecO_C; pfam02565 709991006105 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 709991006106 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 709991006107 Walker A/P-loop; other site 709991006108 ATP binding site [chemical binding]; other site 709991006109 Q-loop/lid; other site 709991006110 ABC transporter signature motif; other site 709991006111 Walker B; other site 709991006112 D-loop; other site 709991006113 H-loop/switch region; other site 709991006114 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 709991006115 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 709991006116 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 709991006117 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991006118 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991006119 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006120 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991006121 Protein export membrane protein; Region: SecD_SecF; cl14618 709991006122 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991006123 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 709991006124 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 709991006125 Walker A/P-loop; other site 709991006126 ATP binding site [chemical binding]; other site 709991006127 Q-loop/lid; other site 709991006128 ABC transporter signature motif; other site 709991006129 Walker B; other site 709991006130 D-loop; other site 709991006131 H-loop/switch region; other site 709991006132 DNA primase, catalytic core; Region: dnaG; TIGR01391 709991006133 CHC2 zinc finger; Region: zf-CHC2; cl15369 709991006134 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 709991006135 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 709991006136 active site 709991006137 metal binding site [ion binding]; metal-binding site 709991006138 interdomain interaction site; other site 709991006139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991006140 Helix-turn-helix domains; Region: HTH; cl00088 709991006141 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991006142 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991006143 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006144 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006145 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991006146 Uncharacterized conserved protein [Function unknown]; Region: COG1284 709991006147 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 709991006148 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 709991006149 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 709991006150 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 709991006151 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 709991006152 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 709991006153 ATP cone domain; Region: ATP-cone; pfam03477 709991006154 Class III ribonucleotide reductase; Region: RNR_III; cd01675 709991006155 effector binding site; other site 709991006156 active site 709991006157 Zn binding site [ion binding]; other site 709991006158 glycine loop; other site 709991006159 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 709991006160 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 709991006161 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 709991006162 binding surface 709991006163 TPR motif; other site 709991006164 TPR repeat; Region: TPR_11; pfam13414 709991006165 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 709991006166 TPR motif; other site 709991006167 binding surface 709991006168 TPR repeat; Region: TPR_11; pfam13414 709991006169 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 709991006170 binding surface 709991006171 TPR motif; other site 709991006172 TPR repeat; Region: TPR_11; pfam13414 709991006173 Cation efflux family; Region: Cation_efflux; cl00316 709991006174 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 709991006175 Uncharacterized conserved protein [Function unknown]; Region: COG2966 709991006176 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 709991006177 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 709991006178 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 709991006179 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 709991006180 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 709991006181 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 709991006182 active site 709991006183 (T/H)XGH motif; other site 709991006184 GTP-binding protein LepA; Provisional; Region: PRK05433 709991006185 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 709991006186 G1 box; other site 709991006187 putative GEF interaction site [polypeptide binding]; other site 709991006188 GTP/Mg2+ binding site [chemical binding]; other site 709991006189 Switch I region; other site 709991006190 G2 box; other site 709991006191 G3 box; other site 709991006192 Switch II region; other site 709991006193 G4 box; other site 709991006194 G5 box; other site 709991006195 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 709991006196 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 709991006197 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 709991006198 hypothetical protein; Provisional; Region: PRK11820 709991006199 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 709991006200 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 709991006201 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 709991006202 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 709991006203 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 709991006204 catalytic site [active] 709991006205 G-X2-G-X-G-K; other site 709991006206 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 709991006207 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 709991006208 Peptidase C26; Region: Peptidase_C26; pfam07722 709991006209 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 709991006210 catalytic triad [active] 709991006211 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 709991006212 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 709991006213 putative substrate translocation pore; other site 709991006214 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 709991006215 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 709991006216 Protein of unknown function (DUF3575); Region: DUF3575; pfam12099 709991006217 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 709991006218 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 709991006219 active site 709991006220 putative substrate binding pocket [chemical binding]; other site 709991006221 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 709991006222 Arginase family; Region: Arginase; cl00306 709991006223 Rhomboid family; Region: Rhomboid; cl11446 709991006224 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991006225 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991006226 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991006227 DNA binding residues [nucleotide binding] 709991006228 FecR protein; Region: FecR; pfam04773 709991006229 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991006230 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991006231 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991006232 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006233 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006234 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006235 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006236 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991006237 SusD family; Region: SusD; pfam07980 709991006238 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991006239 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991006240 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991006241 catalytic residues [active] 709991006242 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991006243 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991006244 catalytic residues [active] 709991006245 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 709991006246 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 709991006247 catalytic residues [active] 709991006248 maltose O-acetyltransferase; Provisional; Region: PRK10092 709991006249 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 709991006250 active site 709991006251 substrate binding site [chemical binding]; other site 709991006252 trimer interface [polypeptide binding]; other site 709991006253 CoA binding site [chemical binding]; other site 709991006254 arginine decarboxylase; Provisional; Region: PRK05354 709991006255 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 709991006256 dimer interface [polypeptide binding]; other site 709991006257 active site 709991006258 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991006259 catalytic residues [active] 709991006260 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 709991006261 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 709991006262 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 709991006263 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 709991006264 Uncharacterized conserved protein [Function unknown]; Region: COG4127 709991006265 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991006266 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991006267 dimerization interface [polypeptide binding]; other site 709991006268 DNA binding residues [nucleotide binding] 709991006269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006270 DNA primase, catalytic core; Region: dnaG; TIGR01391 709991006271 CHC2 zinc finger; Region: zf-CHC2; cl15369 709991006272 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 709991006273 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 709991006274 active site 709991006275 metal binding site [ion binding]; metal-binding site 709991006276 interdomain interaction site; other site 709991006277 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 709991006278 oligomer interface [polypeptide binding]; other site 709991006279 active site residues [active] 709991006280 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 709991006281 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 709991006282 amidase catalytic site [active] 709991006283 Zn binding residues [ion binding]; other site 709991006284 substrate binding site [chemical binding]; other site 709991006285 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 709991006286 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 709991006287 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 709991006288 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 709991006289 active site 709991006290 catalytic residues [active] 709991006291 DNA binding site [nucleotide binding] 709991006292 Int/Topo IB signature motif; other site 709991006293 Ribosome-binding factor A; Region: RBFA; cl00542 709991006294 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 709991006295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991006296 FtsX-like permease family; Region: FtsX; cl15850 709991006297 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 709991006298 active site 709991006299 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; cl00197 709991006300 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 709991006301 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 709991006302 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 709991006303 dimer interface [polypeptide binding]; other site 709991006304 motif 1; other site 709991006305 active site 709991006306 motif 2; other site 709991006307 motif 3; other site 709991006308 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 709991006309 ligand binding site [chemical binding]; other site 709991006310 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 709991006311 TolB amino-terminal domain; Region: TolB_N; cl00639 709991006312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 709991006313 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 709991006314 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 709991006315 metal binding site [ion binding]; metal-binding site 709991006316 putative dimer interface [polypeptide binding]; other site 709991006317 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 709991006318 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 709991006319 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991006320 active site 709991006321 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 709991006322 diiron binding motif [ion binding]; other site 709991006323 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 709991006324 Sodium:solute symporter family; Region: SSF; cl00456 709991006325 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 709991006326 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 709991006327 HIGH motif; other site 709991006328 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991006329 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 709991006330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991006331 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991006332 active site 709991006333 KMSKS motif; other site 709991006334 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 709991006335 tRNA binding surface [nucleotide binding]; other site 709991006336 Protein of unknown function (DUF454); Region: DUF454; cl01063 709991006337 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 709991006338 FMN binding site [chemical binding]; other site 709991006339 active site 709991006340 catalytic residues [active] 709991006341 substrate binding site [chemical binding]; other site 709991006342 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 709991006343 Helix-turn-helix domains; Region: HTH; cl00088 709991006344 alanine dehydrogenase; Validated; Region: PRK06046 709991006345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006346 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991006347 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006348 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006349 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006350 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991006351 Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the...; Region: EGF_CA; cl09941 709991006352 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991006353 catalytic residues [active] 709991006354 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 709991006355 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 709991006356 active site 709991006357 substrate binding site [chemical binding]; other site 709991006358 Mg2+ binding site [ion binding]; other site 709991006359 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 709991006360 C-terminal peptidase (prc); Region: prc; TIGR00225 709991006361 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 709991006362 protein binding site [polypeptide binding]; other site 709991006363 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 709991006364 Catalytic dyad [active] 709991006365 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 709991006366 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 709991006367 substrate binding pocket [chemical binding]; other site 709991006368 chain length determination region; other site 709991006369 substrate-Mg2+ binding site; other site 709991006370 catalytic residues [active] 709991006371 aspartate-rich region 1; other site 709991006372 active site lid residues [active] 709991006373 aspartate-rich region 2; other site 709991006374 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 709991006375 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 709991006376 dimer interface [polypeptide binding]; other site 709991006377 active site 709991006378 metal binding site [ion binding]; metal-binding site 709991006379 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991006380 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 709991006381 putative active site [active] 709991006382 dimerization interface [polypeptide binding]; other site 709991006383 putative tRNAtyr binding site [nucleotide binding]; other site 709991006384 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 709991006385 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 709991006386 Protein export membrane protein; Region: SecD_SecF; cl14618 709991006387 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 709991006388 intersubunit interface [polypeptide binding]; other site 709991006389 active site 709991006390 catalytic residue [active] 709991006391 Protein of unknown function (DUF419); Region: DUF419; cl15265 709991006392 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 709991006393 MutS domain I; Region: MutS_I; pfam01624 709991006394 MutS domain II; Region: MutS_II; pfam05188 709991006395 MutS family domain IV; Region: MutS_IV; pfam05190 709991006396 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 709991006397 Walker A/P-loop; other site 709991006398 ATP binding site [chemical binding]; other site 709991006399 Q-loop/lid; other site 709991006400 ABC transporter signature motif; other site 709991006401 Walker B; other site 709991006402 D-loop; other site 709991006403 H-loop/switch region; other site 709991006404 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991006405 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991006406 catalytic residues [active] 709991006407 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991006408 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 709991006409 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 709991006410 catalytic residues [active] 709991006411 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991006412 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991006413 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991006414 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006415 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006416 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006417 FecR protein; Region: FecR; pfam04773 709991006418 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991006419 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991006420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991006421 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991006422 DNA binding residues [nucleotide binding] 709991006423 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 709991006424 active site 709991006425 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; cl00197 709991006426 Sporulation related domain; Region: SPOR; cl10051 709991006427 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 709991006428 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 709991006429 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 709991006430 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 709991006431 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 709991006432 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 709991006433 putative dimer interface [polypeptide binding]; other site 709991006434 putative anticodon binding site; other site 709991006435 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 709991006436 homodimer interface [polypeptide binding]; other site 709991006437 motif 1; other site 709991006438 motif 2; other site 709991006439 active site 709991006440 motif 3; other site 709991006441 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 709991006442 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 709991006443 FeS/SAM binding site; other site 709991006444 HemN C-terminal domain; Region: HemN_C; pfam06969 709991006445 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006446 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006447 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 709991006448 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 709991006449 23S rRNA interface [nucleotide binding]; other site 709991006450 L3 interface [polypeptide binding]; other site 709991006451 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 709991006452 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 709991006453 rRNA interaction site [nucleotide binding]; other site 709991006454 S8 interaction site; other site 709991006455 putative laminin-1 binding site; other site 709991006456 elongation factor Ts; Provisional; Region: tsf; PRK09377 709991006457 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 709991006458 Elongation factor TS; Region: EF_TS; pfam00889 709991006459 Elongation factor TS; Region: EF_TS; pfam00889 709991006460 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 709991006461 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 709991006462 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 709991006463 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 709991006464 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 709991006465 active site 709991006466 Sulfatase; Region: Sulfatase; cl10460 709991006467 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 709991006468 Ligand binding site; other site 709991006469 Putative Catalytic site; other site 709991006470 DXD motif; other site 709991006471 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 709991006472 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 709991006473 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 709991006474 putative nucleotide binding site [chemical binding]; other site 709991006475 uridine monophosphate binding site [chemical binding]; other site 709991006476 homohexameric interface [polypeptide binding]; other site 709991006477 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 709991006478 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 709991006479 TPP-binding site; other site 709991006480 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 709991006481 PYR/PP interface [polypeptide binding]; other site 709991006482 dimer interface [polypeptide binding]; other site 709991006483 TPP binding site [chemical binding]; other site 709991006484 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 709991006485 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 709991006486 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 709991006487 ligand binding site [chemical binding]; other site 709991006488 flexible hinge region; other site 709991006489 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 709991006490 putative switch regulator; other site 709991006491 non-specific DNA interactions [nucleotide binding]; other site 709991006492 DNA binding site [nucleotide binding] 709991006493 sequence specific DNA binding site [nucleotide binding]; other site 709991006494 putative cAMP binding site [chemical binding]; other site 709991006495 aspartate aminotransferase; Provisional; Region: PRK07568 709991006496 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 709991006497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991006498 homodimer interface [polypeptide binding]; other site 709991006499 catalytic residue [active] 709991006500 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991006501 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 709991006502 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 709991006503 active site 709991006504 HIGH motif; other site 709991006505 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 709991006506 active site 709991006507 KMSKS motif; other site 709991006508 Tic20-like protein; Region: Tic20; pfam09685 709991006509 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 709991006510 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 709991006511 FMN binding site [chemical binding]; other site 709991006512 active site 709991006513 catalytic residues [active] 709991006514 substrate binding site [chemical binding]; other site 709991006515 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 709991006516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991006517 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991006518 DNA binding residues [nucleotide binding] 709991006519 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991006520 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 709991006521 NeuB family; Region: NeuB; cl00496 709991006522 Chorismate mutase type II; Region: CM_2; cl00693 709991006523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006524 Prephenate dehydrogenase; Region: PDH; pfam02153 709991006525 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 709991006526 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 709991006527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991006528 homodimer interface [polypeptide binding]; other site 709991006529 catalytic residue [active] 709991006530 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 709991006531 Prephenate dehydratase; Region: PDT; pfam00800 709991006532 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 709991006533 putative L-Phe binding site [chemical binding]; other site 709991006534 DNA polymerase I; Provisional; Region: PRK05755 709991006535 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 709991006536 active site 709991006537 metal binding site 1 [ion binding]; metal-binding site 709991006538 putative 5' ssDNA interaction site; other site 709991006539 metal binding site 3; metal-binding site 709991006540 metal binding site 2 [ion binding]; metal-binding site 709991006541 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 709991006542 putative DNA binding site [nucleotide binding]; other site 709991006543 putative metal binding site [ion binding]; other site 709991006544 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 709991006545 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 709991006546 active site 709991006547 DNA binding site [nucleotide binding] 709991006548 catalytic site [active] 709991006549 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 709991006550 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 709991006551 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 709991006552 active site 709991006553 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 709991006554 Ribonuclease P; Region: Ribonuclease_P; cl00457 709991006555 Haemolytic domain; Region: Haemolytic; cl00506 709991006556 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 709991006557 C-terminal peptidase (prc); Region: prc; TIGR00225 709991006558 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 709991006559 protein binding site [polypeptide binding]; other site 709991006560 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 709991006561 Catalytic dyad [active] 709991006562 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 709991006563 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 709991006564 GIY-YIG motif/motif A; other site 709991006565 active site 709991006566 catalytic site [active] 709991006567 putative DNA binding site [nucleotide binding]; other site 709991006568 metal binding site [ion binding]; metal-binding site 709991006569 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 709991006570 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 709991006571 DNA binding site [nucleotide binding] 709991006572 metal binding site [ion binding]; metal-binding site 709991006573 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 709991006574 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 709991006575 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 709991006576 active site 709991006577 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 709991006578 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 709991006579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006580 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 709991006581 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 709991006582 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 709991006583 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 709991006584 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 709991006585 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 709991006586 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 709991006587 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 709991006588 TPR motif; other site 709991006589 binding surface 709991006590 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 709991006591 binding surface 709991006592 TPR motif; other site 709991006593 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 709991006594 binding surface 709991006595 TPR motif; other site 709991006596 TPR repeat; Region: TPR_11; pfam13414 709991006597 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 709991006598 binding surface 709991006599 TPR motif; other site 709991006600 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 709991006601 trimer interface [polypeptide binding]; other site 709991006602 active site 709991006603 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 709991006604 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 709991006605 active site 709991006606 nucleotide binding site [chemical binding]; other site 709991006607 HIGH motif; other site 709991006608 KMSKS motif; other site 709991006609 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 709991006610 tetramerization interface [polypeptide binding]; other site 709991006611 active site 709991006612 pantoate--beta-alanine ligase; Region: panC; TIGR00018 709991006613 Pantoate-beta-alanine ligase; Region: PanC; cd00560 709991006614 active site 709991006615 ATP-binding site [chemical binding]; other site 709991006616 pantoate-binding site; other site 709991006617 HXXH motif; other site 709991006618 Arginine repressor [Transcription]; Region: ArgR; COG1438 709991006619 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 709991006620 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 709991006621 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 709991006622 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 709991006623 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 709991006624 catalytic site [active] 709991006625 subunit interface [polypeptide binding]; other site 709991006626 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 709991006627 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 709991006628 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991006629 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 709991006630 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 709991006631 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991006632 Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain; Region: MGS_CPS_I_III; cd01423 709991006633 probable substrate binding site [chemical binding]; other site 709991006634 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991006635 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991006636 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991006637 DNA binding residues [nucleotide binding] 709991006638 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991006639 FecR protein; Region: FecR; pfam04773 709991006640 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991006641 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991006642 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991006643 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991006644 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991006645 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991006646 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991006647 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 709991006648 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991006649 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991006650 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991006651 AAA domain; Region: AAA_21; pfam13304 709991006652 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 709991006653 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 709991006654 Transglycosylase; Region: Transgly; cl07896 709991006655 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991006656 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 709991006657 DNA repair protein RadA; Provisional; Region: PRK11823 709991006658 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 709991006659 Walker A motif/ATP binding site; other site 709991006660 ATP binding site [chemical binding]; other site 709991006661 Walker B motif; other site 709991006662 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 709991006663 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 709991006664 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 709991006665 ligand binding site [chemical binding]; other site 709991006666 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991006667 multiple promoter invertase; Provisional; Region: mpi; PRK13413 709991006668 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 709991006669 catalytic residues [active] 709991006670 catalytic nucleophile [active] 709991006671 Presynaptic Site I dimer interface [polypeptide binding]; other site 709991006672 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 709991006673 Synaptic Flat tetramer interface [polypeptide binding]; other site 709991006674 Synaptic Site I dimer interface [polypeptide binding]; other site 709991006675 DNA binding site [nucleotide binding] 709991006676 Helix-turn-helix domains; Region: HTH; cl00088 709991006677 Transcriptional regulator; Region: Transcrip_reg; cl00361 709991006678 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 709991006679 Transcriptional regulators [Transcription]; Region: PurR; COG1609 709991006680 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 709991006681 DNA binding site [nucleotide binding] 709991006682 domain linker motif; other site 709991006683 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 709991006684 ligand binding site [chemical binding]; other site 709991006685 dimerization interface [polypeptide binding]; other site 709991006686 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 709991006687 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 709991006688 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 709991006689 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 709991006690 catalytic residue [active] 709991006691 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 709991006692 catalytic residues [active] 709991006693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006694 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 709991006695 peroxiredoxin; Region: AhpC; TIGR03137 709991006696 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 709991006697 dimer interface [polypeptide binding]; other site 709991006698 decamer (pentamer of dimers) interface [polypeptide binding]; other site 709991006699 catalytic triad [active] 709991006700 peroxidatic and resolving cysteines [active] 709991006701 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 709991006702 active site 709991006703 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 709991006704 4Fe-4S binding domain; Region: Fer4; cl02805 709991006705 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 709991006706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006707 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 709991006708 putative active site [active] 709991006709 putative catalytic site [active] 709991006710 putative DNA binding site [nucleotide binding]; other site 709991006711 putative phosphate binding site [ion binding]; other site 709991006712 metal binding site A [ion binding]; metal-binding site 709991006713 putative AP binding site [nucleotide binding]; other site 709991006714 putative metal binding site B [ion binding]; other site 709991006715 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 709991006716 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 709991006717 active site 709991006718 metal binding site [ion binding]; metal-binding site 709991006719 Ferritin-like domain; Region: Ferritin; pfam00210 709991006720 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 709991006721 dimerization interface [polypeptide binding]; other site 709991006722 DPS ferroxidase diiron center [ion binding]; other site 709991006723 ion pore; other site 709991006724 EamA-like transporter family; Region: EamA; cl01037 709991006725 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 709991006726 EamA-like transporter family; Region: EamA; cl01037 709991006727 polycystin cation channel protein; Region: PCC; TIGR00864 709991006728 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 709991006729 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991006730 Uncharacterized conserved protein [Function unknown]; Region: COG3391 709991006731 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 709991006732 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991006733 N-terminal plug; other site 709991006734 ligand-binding site [chemical binding]; other site 709991006735 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 709991006736 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 709991006737 putative ligand binding site [chemical binding]; other site 709991006738 Peptidase C10 family; Region: Peptidase_C10; pfam01640 709991006739 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991006740 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 709991006741 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991006742 ABC-ATPase subunit interface; other site 709991006743 dimer interface [polypeptide binding]; other site 709991006744 putative PBP binding regions; other site 709991006745 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 709991006746 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 709991006747 Walker A/P-loop; other site 709991006748 ATP binding site [chemical binding]; other site 709991006749 Q-loop/lid; other site 709991006750 ABC transporter signature motif; other site 709991006751 Walker B; other site 709991006752 D-loop; other site 709991006753 H-loop/switch region; other site 709991006754 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 709991006755 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 709991006756 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 709991006757 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991006758 Helix-turn-helix domains; Region: HTH; cl00088 709991006759 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 709991006760 Helix-turn-helix domains; Region: HTH; cl00088 709991006761 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991006762 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 709991006763 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006764 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 709991006765 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 709991006766 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 709991006767 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991006768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991006769 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006770 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006771 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991006772 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991006773 multiple promoter invertase; Provisional; Region: mpi; PRK13413 709991006774 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 709991006775 catalytic residues [active] 709991006776 catalytic nucleophile [active] 709991006777 Presynaptic Site I dimer interface [polypeptide binding]; other site 709991006778 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 709991006779 Synaptic Flat tetramer interface [polypeptide binding]; other site 709991006780 Synaptic Site I dimer interface [polypeptide binding]; other site 709991006781 DNA binding site [nucleotide binding] 709991006782 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 709991006783 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006784 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 709991006785 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 709991006786 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 709991006787 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 709991006788 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991006789 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 709991006790 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 709991006791 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 709991006792 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 709991006793 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 709991006794 protein binding site [polypeptide binding]; other site 709991006795 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 709991006796 Domain interface; other site 709991006797 Peptide binding site; other site 709991006798 Active site tetrad [active] 709991006799 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 709991006800 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 709991006801 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 709991006802 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 709991006803 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991006804 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 709991006805 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 709991006806 Ligand Binding Site [chemical binding]; other site 709991006807 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 709991006808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006809 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 709991006810 acetylornithine aminotransferase; Provisional; Region: PRK02627 709991006811 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 709991006812 inhibitor-cofactor binding pocket; inhibition site 709991006813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991006814 catalytic residue [active] 709991006815 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 709991006816 nucleotide binding site [chemical binding]; other site 709991006817 N-acetyl-L-glutamate binding site [chemical binding]; other site 709991006818 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 709991006819 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 709991006820 metal binding site [ion binding]; metal-binding site 709991006821 dimer interface [polypeptide binding]; other site 709991006822 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 709991006823 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 709991006824 active sites [active] 709991006825 tetramer interface [polypeptide binding]; other site 709991006826 Inner membrane protein CreD; Region: CreD; cl01844 709991006827 Helix-turn-helix domains; Region: HTH; cl00088 709991006828 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 709991006829 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 709991006830 active site 709991006831 phosphorylation site [posttranslational modification] 709991006832 intermolecular recognition site; other site 709991006833 dimerization interface [polypeptide binding]; other site 709991006834 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991006835 Walker A motif; other site 709991006836 ATP binding site [chemical binding]; other site 709991006837 Walker B motif; other site 709991006838 arginine finger; other site 709991006839 Helix-turn-helix domains; Region: HTH; cl00088 709991006840 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 709991006841 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 709991006842 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 709991006843 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 709991006844 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 709991006845 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991006846 sugar binding site [chemical binding]; other site 709991006847 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991006848 dimer interface [polypeptide binding]; other site 709991006849 phosphorylation site [posttranslational modification] 709991006850 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 709991006851 ATP binding site [chemical binding]; other site 709991006852 Mg2+ binding site [ion binding]; other site 709991006853 G-X-G motif; other site 709991006854 Response regulator receiver domain; Region: Response_reg; pfam00072 709991006855 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 709991006856 active site 709991006857 phosphorylation site [posttranslational modification] 709991006858 intermolecular recognition site; other site 709991006859 dimerization interface [polypeptide binding]; other site 709991006860 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 709991006861 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 709991006862 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 709991006863 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 709991006864 active site 709991006865 homodimer interface [polypeptide binding]; other site 709991006866 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 709991006867 active site 709991006868 glutamate dehydrogenase; Provisional; Region: PRK09414 709991006869 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 709991006870 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 709991006871 NAD(P) binding site [chemical binding]; other site 709991006872 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 709991006873 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 709991006874 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 709991006875 active site 709991006876 dimer interface [polypeptide binding]; other site 709991006877 metal binding site [ion binding]; metal-binding site 709991006878 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 709991006879 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 709991006880 hinge; other site 709991006881 active site 709991006882 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 709991006883 nucleoside/Zn binding site; other site 709991006884 dimer interface [polypeptide binding]; other site 709991006885 catalytic motif [active] 709991006886 Phosphoglycerate kinase; Region: PGK; pfam00162 709991006887 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 709991006888 substrate binding site [chemical binding]; other site 709991006889 hinge regions; other site 709991006890 ADP binding site [chemical binding]; other site 709991006891 catalytic site [active] 709991006892 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 709991006893 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 709991006894 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991006895 catalytic residue [active] 709991006896 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 709991006897 ligand binding site [chemical binding]; other site 709991006898 flexible hinge region; other site 709991006899 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 709991006900 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 709991006901 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 709991006902 Fibronectin type III-like domain; Region: Fn3-like; cl15273 709991006903 Helix-turn-helix domains; Region: HTH; cl00088 709991006904 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 709991006905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991006906 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 709991006907 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 709991006908 Cation transport protein; Region: TrkH; cl10514 709991006909 Protein of unknown function, DUF486; Region: DUF486; cl01236 709991006910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991006911 AAA domain; Region: AAA_21; pfam13304 709991006912 Walker A/P-loop; other site 709991006913 ATP binding site [chemical binding]; other site 709991006914 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 709991006915 ATP binding site [chemical binding]; other site 709991006916 Q-loop/lid; other site 709991006917 ABC transporter signature motif; other site 709991006918 Walker B; other site 709991006919 D-loop; other site 709991006920 H-loop/switch region; other site 709991006921 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 709991006922 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 709991006923 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991006924 Walker A motif; other site 709991006925 ATP binding site [chemical binding]; other site 709991006926 Walker B motif; other site 709991006927 arginine finger; other site 709991006928 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 709991006929 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991006930 dimer interface [polypeptide binding]; other site 709991006931 phosphorylation site [posttranslational modification] 709991006932 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 709991006933 ATP binding site [chemical binding]; other site 709991006934 Mg2+ binding site [ion binding]; other site 709991006935 G-X-G motif; other site 709991006936 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991006937 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 709991006938 active site 709991006939 phosphorylation site [posttranslational modification] 709991006940 intermolecular recognition site; other site 709991006941 dimerization interface [polypeptide binding]; other site 709991006942 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 709991006943 DNA binding site [nucleotide binding] 709991006944 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 709991006945 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991006946 catalytic residues [active] 709991006947 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 709991006948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991006949 Walker A/P-loop; other site 709991006950 ATP binding site [chemical binding]; other site 709991006951 Q-loop/lid; other site 709991006952 ABC transporter signature motif; other site 709991006953 Walker B; other site 709991006954 D-loop; other site 709991006955 H-loop/switch region; other site 709991006956 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 709991006957 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 709991006958 ATP binding site [chemical binding]; other site 709991006959 Mg2+ binding site [ion binding]; other site 709991006960 G-X-G motif; other site 709991006961 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 709991006962 ATP binding site [chemical binding]; other site 709991006963 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 709991006964 Predicted integral membrane protein [Function unknown]; Region: COG0392 709991006965 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 709991006966 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991006967 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991006968 intramembrane serine protease GlpG; Provisional; Region: PRK10907 709991006969 Rhomboid family; Region: Rhomboid; cl11446 709991006970 Rhomboid family; Region: Rhomboid; cl11446 709991006971 Rhomboid family; Region: Rhomboid; cl11446 709991006972 PSP1 C-terminal conserved region; Region: PSP1; cl00770 709991006973 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 709991006974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991006975 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 709991006976 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 709991006977 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 709991006978 dimer interface [polypeptide binding]; other site 709991006979 anticodon binding site; other site 709991006980 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 709991006981 homodimer interface [polypeptide binding]; other site 709991006982 motif 1; other site 709991006983 active site 709991006984 motif 2; other site 709991006985 GAD domain; Region: GAD; pfam02938 709991006986 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 709991006987 motif 3; other site 709991006988 Colicin V production protein; Region: Colicin_V; cl00567 709991006989 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 709991006990 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 709991006991 active site 709991006992 HIGH motif; other site 709991006993 dimer interface [polypeptide binding]; other site 709991006994 KMSKS motif; other site 709991006995 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991006996 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 709991006997 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 709991006998 HflX GTPase family; Region: HflX; cd01878 709991006999 G1 box; other site 709991007000 GTP/Mg2+ binding site [chemical binding]; other site 709991007001 Switch I region; other site 709991007002 G2 box; other site 709991007003 G3 box; other site 709991007004 Switch II region; other site 709991007005 G4 box; other site 709991007006 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991007007 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 709991007008 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 709991007009 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 709991007010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007011 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 709991007012 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 709991007013 Sulfatase; Region: Sulfatase; cl10460 709991007014 Surface antigen; Region: Bac_surface_Ag; cl03097 709991007015 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 709991007016 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007018 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007019 DNA binding residues [nucleotide binding] 709991007020 FecR protein; Region: FecR; pfam04773 709991007021 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007022 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007023 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007024 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007025 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007026 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007027 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 709991007028 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 709991007029 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 709991007030 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 709991007031 G1 box; other site 709991007032 putative GEF interaction site [polypeptide binding]; other site 709991007033 GTP/Mg2+ binding site [chemical binding]; other site 709991007034 Switch I region; other site 709991007035 G2 box; other site 709991007036 G3 box; other site 709991007037 Switch II region; other site 709991007038 G4 box; other site 709991007039 G5 box; other site 709991007040 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 709991007041 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 709991007042 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 709991007043 hypothetical protein; Provisional; Region: PRK08185 709991007044 intersubunit interface [polypeptide binding]; other site 709991007045 active site 709991007046 zinc binding site [ion binding]; other site 709991007047 Na+ binding site [ion binding]; other site 709991007048 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; cl15754 709991007049 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 709991007050 TPR motif; other site 709991007051 binding surface 709991007052 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 709991007053 ligand binding site [chemical binding]; other site 709991007054 active site 709991007055 UGI interface [polypeptide binding]; other site 709991007056 catalytic site [active] 709991007057 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 709991007058 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 709991007059 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 709991007060 active site 709991007061 HIGH motif; other site 709991007062 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 709991007063 KMSKS motif; other site 709991007064 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 709991007065 tRNA binding surface [nucleotide binding]; other site 709991007066 anticodon binding site; other site 709991007067 threonine dehydratase; Validated; Region: PRK08639 709991007068 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 709991007069 tetramer interface [polypeptide binding]; other site 709991007070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007071 catalytic residue [active] 709991007072 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 709991007073 putative Ile/Val binding site [chemical binding]; other site 709991007074 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 709991007075 tartrate dehydrogenase; Provisional; Region: PRK08194 709991007076 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 709991007077 substrate binding site [chemical binding]; other site 709991007078 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 709991007079 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 709991007080 substrate binding site [chemical binding]; other site 709991007081 ligand binding site [chemical binding]; other site 709991007082 2-isopropylmalate synthase; Validated; Region: PRK00915 709991007083 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 709991007084 active site 709991007085 catalytic residues [active] 709991007086 metal binding site [ion binding]; metal-binding site 709991007087 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 709991007088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007089 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 709991007090 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 709991007091 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 709991007092 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 709991007093 putative valine binding site [chemical binding]; other site 709991007094 dimer interface [polypeptide binding]; other site 709991007095 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 709991007096 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 709991007097 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 709991007098 PYR/PP interface [polypeptide binding]; other site 709991007099 dimer interface [polypeptide binding]; other site 709991007100 TPP binding site [chemical binding]; other site 709991007101 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 709991007102 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 709991007103 TPP-binding site [chemical binding]; other site 709991007104 dimer interface [polypeptide binding]; other site 709991007105 Dehydratase family; Region: ILVD_EDD; cl00340 709991007106 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 709991007107 putative active site [active] 709991007108 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 709991007109 AMP-binding enzyme; Region: AMP-binding; cl15778 709991007110 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 709991007111 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 709991007112 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 709991007113 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 709991007114 MatE; Region: MatE; cl10513 709991007115 MatE; Region: MatE; cl10513 709991007116 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 709991007117 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991007118 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 709991007119 ATP binding site [chemical binding]; other site 709991007120 Mg2+ binding site [ion binding]; other site 709991007121 G-X-G motif; other site 709991007122 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991007123 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 709991007124 active site 709991007125 phosphorylation site [posttranslational modification] 709991007126 intermolecular recognition site; other site 709991007127 dimerization interface [polypeptide binding]; other site 709991007128 Helix-turn-helix domains; Region: HTH; cl00088 709991007129 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 709991007130 Protein of unknown function, DUF481; Region: DUF481; cl01213 709991007131 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 709991007132 GGGtGRT protein; Region: GGGtGRT; pfam14057 709991007133 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 709991007134 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 709991007135 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 709991007136 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 709991007137 Cupin domain; Region: Cupin_2; cl09118 709991007138 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 709991007139 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991007140 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991007141 Fimbrillin-A associated anchor proteins Mfa1 and Mfa2; Region: Mfa2; pfam08842 709991007142 DoxX; Region: DoxX; cl00976 709991007143 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991007144 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 709991007145 substrate binding site [chemical binding]; other site 709991007146 nucleotide binding site [chemical binding]; other site 709991007147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 709991007148 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 709991007149 dimer interface [polypeptide binding]; other site 709991007150 active site 709991007151 metal binding site [ion binding]; metal-binding site 709991007152 glutathione binding site [chemical binding]; other site 709991007153 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991007154 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 709991007155 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007156 Walker A/P-loop; other site 709991007157 ATP binding site [chemical binding]; other site 709991007158 Q-loop/lid; other site 709991007159 ABC transporter signature motif; other site 709991007160 Walker B; other site 709991007161 D-loop; other site 709991007162 H-loop/switch region; other site 709991007163 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 709991007164 active site 709991007165 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007167 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007168 DNA binding residues [nucleotide binding] 709991007169 FecR protein; Region: FecR; pfam04773 709991007170 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007171 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007172 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007173 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007174 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007175 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007176 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007177 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 709991007178 active site 709991007179 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 709991007180 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007181 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007182 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007183 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007184 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007185 FecR protein; Region: FecR; pfam04773 709991007186 fec operon regulator FecR; Reviewed; Region: PRK09774 709991007187 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007188 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007189 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007190 DNA binding residues [nucleotide binding] 709991007191 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 709991007192 RNA/DNA hybrid binding site [nucleotide binding]; other site 709991007193 active site 709991007194 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 709991007195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007196 NAD(P) binding site [chemical binding]; other site 709991007197 active site 709991007198 ribonuclease R; Region: RNase_R; TIGR02063 709991007199 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 709991007200 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 709991007201 RNB domain; Region: RNB; pfam00773 709991007202 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 709991007203 RNA binding site [nucleotide binding]; other site 709991007204 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 709991007205 Carbon starvation protein CstA; Region: CstA; pfam02554 709991007206 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 709991007207 putative peptidase; Provisional; Region: PRK11649 709991007208 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 709991007209 metal ion-dependent adhesion site (MIDAS); other site 709991007210 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 709991007211 catalytic residues [active] 709991007212 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 709991007213 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 709991007214 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 709991007215 generic binding surface I; other site 709991007216 generic binding surface II; other site 709991007217 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 709991007218 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 709991007219 active site 709991007220 substrate binding site [chemical binding]; other site 709991007221 cosubstrate binding site; other site 709991007222 catalytic site [active] 709991007223 Phosphopantetheine attachment site; Region: PP-binding; cl09936 709991007224 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 709991007225 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 709991007226 dimer interface [polypeptide binding]; other site 709991007227 active site 709991007228 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 709991007229 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 709991007230 dimerization interface [polypeptide binding]; other site 709991007231 active site 709991007232 metal binding site [ion binding]; metal-binding site 709991007233 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cl00054 709991007234 elongation factor P; Validated; Region: PRK00529 709991007235 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 709991007236 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 709991007237 RNA binding site [nucleotide binding]; other site 709991007238 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 709991007239 RNA binding site [nucleotide binding]; other site 709991007240 RDD family; Region: RDD; cl00746 709991007241 Integral membrane protein DUF95; Region: DUF95; cl00572 709991007242 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 709991007243 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 709991007244 MoxR-like ATPases [General function prediction only]; Region: COG0714 709991007245 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991007246 Walker A motif; other site 709991007247 ATP binding site [chemical binding]; other site 709991007248 Walker B motif; other site 709991007249 arginine finger; other site 709991007250 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 709991007251 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 709991007252 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 709991007253 H+ Antiporter protein; Region: 2A0121; TIGR00900 709991007254 putative substrate translocation pore; other site 709991007255 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 709991007256 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 709991007257 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 709991007258 DNA topoisomerase III; Provisional; Region: PRK07726 709991007259 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 709991007260 active site 709991007261 putative interdomain interaction site [polypeptide binding]; other site 709991007262 putative metal-binding site [ion binding]; other site 709991007263 putative nucleotide binding site [chemical binding]; other site 709991007264 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 709991007265 domain I; other site 709991007266 DNA binding groove [nucleotide binding] 709991007267 phosphate binding site [ion binding]; other site 709991007268 domain II; other site 709991007269 domain III; other site 709991007270 nucleotide binding site [chemical binding]; other site 709991007271 catalytic site [active] 709991007272 domain IV; other site 709991007273 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 709991007274 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 709991007275 catalytic residues [active] 709991007276 catalytic nucleophile [active] 709991007277 Presynaptic Site I dimer interface [polypeptide binding]; other site 709991007278 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 709991007279 Synaptic Flat tetramer interface [polypeptide binding]; other site 709991007280 Synaptic Site I dimer interface [polypeptide binding]; other site 709991007281 DNA binding site [nucleotide binding] 709991007282 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 709991007283 MatE; Region: MatE; cl10513 709991007284 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 709991007285 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991007286 inhibitor-cofactor binding pocket; inhibition site 709991007287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007288 catalytic residue [active] 709991007289 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 709991007290 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991007291 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 709991007292 Acyl transferase domain; Region: Acyl_transf_1; cl08282 709991007293 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 709991007294 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 709991007295 classical (c) SDRs; Region: SDR_c; cd05233 709991007296 NAD(P) binding site [chemical binding]; other site 709991007297 active site 709991007298 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 709991007299 AMP-binding enzyme; Region: AMP-binding; cl15778 709991007300 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 709991007301 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991007302 Phosphopantetheine attachment site; Region: PP-binding; cl09936 709991007303 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 709991007304 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 709991007305 active site 709991007306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 709991007307 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 709991007308 active site 709991007309 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 709991007310 active site 709991007311 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 709991007312 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 709991007313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007314 NAD(P) binding site [chemical binding]; other site 709991007315 active site 709991007316 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 709991007317 active site 709991007318 NTP binding site [chemical binding]; other site 709991007319 metal binding triad [ion binding]; metal-binding site 709991007320 antibiotic binding site [chemical binding]; other site 709991007321 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 709991007322 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 709991007323 substrate binding site; other site 709991007324 tetramer interface; other site 709991007325 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 709991007326 active site 709991007327 NTP binding site [chemical binding]; other site 709991007328 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 709991007329 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 709991007330 metal binding triad [ion binding]; metal-binding site 709991007331 HEPN domain; Region: HEPN; cl00824 709991007332 Cupin domain; Region: Cupin_2; cl09118 709991007333 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 709991007334 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 709991007335 NAD binding site [chemical binding]; other site 709991007336 substrate binding site [chemical binding]; other site 709991007337 homodimer interface [polypeptide binding]; other site 709991007338 active site 709991007339 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 709991007340 transcriptional activator RfaH; Region: RfaH; TIGR01955 709991007341 Archaeal ATPase; Region: Arch_ATPase; pfam01637 709991007342 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 709991007343 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991007344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007345 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 709991007346 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 709991007347 active site 709991007348 homodimer interface [polypeptide binding]; other site 709991007349 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 709991007350 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 709991007351 NAD(P) binding site [chemical binding]; other site 709991007352 homodimer interface [polypeptide binding]; other site 709991007353 substrate binding site [chemical binding]; other site 709991007354 active site 709991007355 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 709991007356 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991007357 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 709991007358 inhibitor-cofactor binding pocket; inhibition site 709991007359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007360 catalytic residue [active] 709991007361 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991007362 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 709991007363 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991007364 catalytic residue [active] 709991007365 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 709991007366 putative trimer interface [polypeptide binding]; other site 709991007367 putative CoA binding site [chemical binding]; other site 709991007368 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 709991007369 MatE; Region: MatE; cl10513 709991007370 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 709991007371 trimer interface [polypeptide binding]; other site 709991007372 active site 709991007373 substrate binding site [chemical binding]; other site 709991007374 CoA binding site [chemical binding]; other site 709991007375 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 709991007376 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 709991007377 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991007378 catalytic residue [active] 709991007379 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 709991007380 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 709991007381 active site 709991007382 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991007383 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u8; cd10932 709991007384 NodB motif; other site 709991007385 putative active site [active] 709991007386 putative catalytic site [active] 709991007387 O-Antigen ligase; Region: Wzy_C; cl04850 709991007388 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 709991007389 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 709991007390 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 709991007391 active site 709991007392 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 709991007393 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 709991007394 active site 709991007395 Cupin domain; Region: Cupin_2; cl09118 709991007396 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; Region: NGN_SP_UpxY; cd09895 709991007397 transcriptional activator RfaH; Region: RfaH; TIGR01955 709991007398 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007399 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007400 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007401 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007402 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 709991007403 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991007404 catalytic residue [active] 709991007405 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007406 catalytic residues [active] 709991007407 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 709991007408 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 709991007409 motif II; other site 709991007410 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 709991007411 putative active site [active] 709991007412 putative metal binding residues [ion binding]; other site 709991007413 signature motif; other site 709991007414 putative dimer interface [polypeptide binding]; other site 709991007415 putative phosphate binding site [ion binding]; other site 709991007416 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 709991007417 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 709991007418 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 709991007419 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 709991007420 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991007421 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007422 catalytic residues [active] 709991007423 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991007424 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007425 catalytic residues [active] 709991007426 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007427 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 709991007428 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007429 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007430 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007431 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007432 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007433 FecR protein; Region: FecR; pfam04773 709991007434 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007435 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007436 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007437 DNA binding residues [nucleotide binding] 709991007438 Repair protein; Region: Repair_PSII; cl01535 709991007439 Repair protein; Region: Repair_PSII; cl01535 709991007440 LemA family; Region: LemA; cl00742 709991007441 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 709991007442 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 709991007443 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 709991007444 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 709991007445 LemA family; Region: LemA; cl00742 709991007446 LysE type translocator; Region: LysE; cl00565 709991007447 hypothetical protein; Provisional; Region: PRK11770 709991007448 Domain of unknown function (DUF307); Region: DUF307; pfam03733 709991007449 Domain of unknown function (DUF307); Region: DUF307; pfam03733 709991007450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991007451 active site 709991007452 Uncharacterized conserved protein [Function unknown]; Region: COG2006 709991007453 Domain of unknown function (DUF362); Region: DUF362; pfam04015 709991007454 4Fe-4S binding domain; Region: Fer4_5; pfam12801 709991007455 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 709991007456 4Fe-4S binding domain; Region: Fer4_5; pfam12801 709991007457 ferredoxin-type protein; Provisional; Region: PRK10194 709991007458 4Fe-4S binding domain; Region: Fer4; cl02805 709991007459 Sulfate transporter family; Region: Sulfate_transp; cl15842 709991007460 putative transporter; Provisional; Region: PRK11660 709991007461 Sulfate transporter family; Region: Sulfate_transp; cl15842 709991007462 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 709991007463 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991007464 amidophosphoribosyltransferase; Region: purF; TIGR01134 709991007465 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 709991007466 active site 709991007467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 709991007468 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007470 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991007471 DNA binding residues [nucleotide binding] 709991007472 FecR protein; Region: FecR; pfam04773 709991007473 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991007474 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007475 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007476 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007477 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007478 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007479 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007480 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 709991007481 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 709991007482 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 709991007483 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 709991007484 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 709991007485 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 709991007486 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 709991007487 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 709991007488 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 709991007489 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 709991007490 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 709991007491 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 709991007492 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 709991007493 Found in ATP-dependent protease La (LON); Region: LON; smart00464 709991007494 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991007495 Walker A motif; other site 709991007496 ATP binding site [chemical binding]; other site 709991007497 Walker B motif; other site 709991007498 arginine finger; other site 709991007499 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 709991007500 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 709991007501 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 709991007502 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 709991007503 LrgA family; Region: LrgA; cl00608 709991007504 LrgB-like family; Region: LrgB; cl00596 709991007505 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 709991007506 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 709991007507 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 709991007508 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 709991007509 tandem repeat interface [polypeptide binding]; other site 709991007510 oligomer interface [polypeptide binding]; other site 709991007511 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 709991007512 active site residues [active] 709991007513 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 709991007514 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 709991007515 tandem repeat interface [polypeptide binding]; other site 709991007516 oligomer interface [polypeptide binding]; other site 709991007517 active site residues [active] 709991007518 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 709991007519 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 709991007520 hinge; other site 709991007521 active site 709991007522 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 709991007523 catalytic center binding site [active] 709991007524 ATP binding site [chemical binding]; other site 709991007525 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 709991007526 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 709991007527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007528 Family description; Region: UvrD_C_2; cl15862 709991007529 FlgD Ig-like domain; Region: FlgD_ig; cl15790 709991007530 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 709991007531 TPR motif; other site 709991007532 binding surface 709991007533 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 709991007534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991007535 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 709991007536 KilA-N domain; Region: KilA-N; pfam04383 709991007537 AAA domain; Region: AAA_22; pfam13401 709991007538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007539 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 709991007540 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 709991007541 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 709991007542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 709991007543 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991007544 dimer interface [polypeptide binding]; other site 709991007545 phosphorylation site [posttranslational modification] 709991007546 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 709991007547 ATP binding site [chemical binding]; other site 709991007548 Mg2+ binding site [ion binding]; other site 709991007549 G-X-G motif; other site 709991007550 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 709991007551 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 709991007552 putative active site [active] 709991007553 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 709991007554 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 709991007555 metal binding site [ion binding]; metal-binding site 709991007556 dimer interface [polypeptide binding]; other site 709991007557 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991007558 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991007559 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 709991007560 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 709991007561 UDP-glucose 4-epimerase; Region: PLN02240 709991007562 NAD binding site [chemical binding]; other site 709991007563 homodimer interface [polypeptide binding]; other site 709991007564 active site 709991007565 substrate binding site [chemical binding]; other site 709991007566 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 709991007567 Restriction endonuclease; Region: Mrr_cat; cl00516 709991007568 OsmC-like protein; Region: OsmC; cl00767 709991007569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007570 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 709991007571 NAD(P) binding site [chemical binding]; other site 709991007572 active site 709991007573 peptide chain release factor 1; Validated; Region: prfA; PRK00591 709991007574 RF-1 domain; Region: RF-1; cl02875 709991007575 RF-1 domain; Region: RF-1; cl02875 709991007576 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 709991007577 active site 709991007578 dimer interface [polypeptide binding]; other site 709991007579 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 709991007580 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 709991007581 active site 709991007582 motif I; other site 709991007583 motif II; other site 709991007584 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 709991007585 dimer interface [polypeptide binding]; other site 709991007586 pyridoxal binding site [chemical binding]; other site 709991007587 ATP binding site [chemical binding]; other site 709991007588 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 709991007589 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 709991007590 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 709991007591 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 709991007592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007593 Walker A/P-loop; other site 709991007594 ATP binding site [chemical binding]; other site 709991007595 Q-loop/lid; other site 709991007596 ABC transporter signature motif; other site 709991007597 Walker B; other site 709991007598 D-loop; other site 709991007599 H-loop/switch region; other site 709991007600 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 709991007601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007602 Walker A/P-loop; other site 709991007603 ATP binding site [chemical binding]; other site 709991007604 Q-loop/lid; other site 709991007605 ABC transporter signature motif; other site 709991007606 Walker B; other site 709991007607 D-loop; other site 709991007608 H-loop/switch region; other site 709991007609 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991007610 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 709991007611 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 709991007612 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 709991007613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007614 Walker A/P-loop; other site 709991007615 ATP binding site [chemical binding]; other site 709991007616 Q-loop/lid; other site 709991007617 ABC transporter signature motif; other site 709991007618 Walker B; other site 709991007619 D-loop; other site 709991007620 H-loop/switch region; other site 709991007621 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 709991007622 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991007623 SusD family; Region: SusD; pfam07980 709991007624 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 709991007625 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991007626 Walker A motif; other site 709991007627 ATP binding site [chemical binding]; other site 709991007628 Walker B motif; other site 709991007629 arginine finger; other site 709991007630 Helix-turn-helix domains; Region: HTH; cl00088 709991007631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 709991007632 Integrase core domain; Region: rve; cl01316 709991007633 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 709991007634 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 709991007635 Transposase [DNA replication, recombination, and repair]; Region: COG5421 709991007636 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 709991007637 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007638 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007639 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007640 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007641 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007642 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 709991007643 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 709991007644 RNA/DNA hybrid binding site [nucleotide binding]; other site 709991007645 active site 709991007646 GH3 auxin-responsive promoter; Region: GH3; cl04006 709991007647 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 709991007648 active site 709991007649 metal binding site [ion binding]; metal-binding site 709991007650 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007651 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007652 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007653 DNA binding residues [nucleotide binding] 709991007654 FecR protein; Region: FecR; pfam04773 709991007655 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007656 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007657 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007658 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007659 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007660 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991007661 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991007662 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991007663 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 709991007664 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 709991007665 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 709991007666 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 709991007667 NAD(P) binding site [chemical binding]; other site 709991007668 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 709991007669 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 709991007670 FeS/SAM binding site; other site 709991007671 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 709991007672 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 709991007673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991007674 Walker A/P-loop; other site 709991007675 ATP binding site [chemical binding]; other site 709991007676 Q-loop/lid; other site 709991007677 ABC transporter signature motif; other site 709991007678 Walker B; other site 709991007679 D-loop; other site 709991007680 H-loop/switch region; other site 709991007681 D-Lysine 5,6-aminomutase alpha subunit; Region: Lys-AminoMut_A; pfam09043 709991007682 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 709991007683 B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase...; Region: B12-binding; cd02067 709991007684 B12 binding site [chemical binding]; other site 709991007685 cobalt ligand [ion binding]; other site 709991007686 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 709991007687 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 709991007688 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 709991007689 FAD binding site [chemical binding]; other site 709991007690 homotetramer interface [polypeptide binding]; other site 709991007691 substrate binding pocket [chemical binding]; other site 709991007692 catalytic base [active] 709991007693 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 709991007694 Ligand binding site [chemical binding]; other site 709991007695 Electron transfer flavoprotein domain; Region: ETF; pfam01012 709991007696 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 709991007697 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 709991007698 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 709991007699 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 709991007700 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 709991007701 substrate binding site [chemical binding]; other site 709991007702 oxyanion hole (OAH) forming residues; other site 709991007703 trimer interface [polypeptide binding]; other site 709991007704 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 709991007705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007706 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 709991007707 hypothetical protein; Provisional; Region: PRK12705 709991007708 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007710 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007711 DNA binding residues [nucleotide binding] 709991007712 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991007713 FecR protein; Region: FecR; pfam04773 709991007714 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007715 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007716 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991007717 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991007718 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991007719 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991007720 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991007721 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991007722 HEAT repeats; Region: HEAT_2; pfam13646 709991007723 HEAT repeats; Region: HEAT_2; pfam13646 709991007724 HEAT repeats; Region: HEAT_2; pfam13646 709991007725 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 709991007726 catalytic residues [active] 709991007727 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991007728 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991007729 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991007730 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007731 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991007732 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007733 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991007734 FecR protein; Region: FecR; pfam04773 709991007735 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007736 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007737 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007738 DNA binding residues [nucleotide binding] 709991007739 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 709991007740 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 709991007741 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 709991007742 TPP-binding site [chemical binding]; other site 709991007743 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 709991007744 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 709991007745 dimer interface [polypeptide binding]; other site 709991007746 PYR/PP interface [polypeptide binding]; other site 709991007747 TPP binding site [chemical binding]; other site 709991007748 substrate binding site [chemical binding]; other site 709991007749 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 709991007750 4Fe-4S binding domain; Region: Fer4; cl02805 709991007751 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 709991007752 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 709991007753 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 709991007754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007755 homodimer interface [polypeptide binding]; other site 709991007756 catalytic residue [active] 709991007757 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 709991007758 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 709991007759 FtsX-like permease family; Region: FtsX; cl15850 709991007760 Gram-negative bacterial tonB protein; Region: TonB; cl10048 709991007761 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 709991007762 active site 709991007763 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 709991007764 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 709991007765 active site 709991007766 Bacterial Ig-like domain; Region: Big_5; cl01012 709991007767 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007768 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 709991007769 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 709991007770 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 709991007771 AsmA family; Region: AsmA; pfam05170 709991007772 AsmA-like C-terminal region; Region: AsmA_2; cl15864 709991007773 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 709991007774 active site 709991007775 NTP binding site [chemical binding]; other site 709991007776 metal binding triad [ion binding]; metal-binding site 709991007777 antibiotic binding site [chemical binding]; other site 709991007778 Protein of unknown function DUF86; Region: DUF86; cl01031 709991007779 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 709991007780 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 709991007781 dimerization interface [polypeptide binding]; other site 709991007782 ATP binding site [chemical binding]; other site 709991007783 Uncharacterized conserved protein [Function unknown]; Region: COG2128 709991007784 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 709991007785 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 709991007786 Ferritin-like domain; Region: Ferritin; pfam00210 709991007787 ferroxidase diiron center [ion binding]; other site 709991007788 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 709991007789 FtsX-like permease family; Region: FtsX; cl15850 709991007790 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 709991007791 Bacitracin resistance protein BacA; Region: BacA; cl00858 709991007792 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 709991007793 RNA binding site [nucleotide binding]; other site 709991007794 active site 709991007795 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 709991007796 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 709991007797 Peptidase family M48; Region: Peptidase_M48; cl12018 709991007798 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 709991007799 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 709991007800 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991007801 catalytic residue [active] 709991007802 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 709991007803 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 709991007804 Flavoprotein; Region: Flavoprotein; cl08021 709991007805 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 709991007806 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 709991007807 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 709991007808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007809 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 709991007810 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 709991007811 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 709991007812 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 709991007813 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 709991007814 acyl-CoA esterase; Provisional; Region: PRK10673 709991007815 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 709991007816 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 709991007817 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 709991007818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991007819 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 709991007820 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 709991007821 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 709991007822 putative Iron-sulfur protein interface [polypeptide binding]; other site 709991007823 proximal heme binding site [chemical binding]; other site 709991007824 distal heme binding site [chemical binding]; other site 709991007825 putative dimer interface [polypeptide binding]; other site 709991007826 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 709991007827 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 709991007828 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 709991007829 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991007830 Integral membrane protein DUF106; Region: DUF106; cl00623 709991007831 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007832 catalytic residues [active] 709991007833 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 709991007834 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 709991007835 binding surface 709991007836 TPR motif; other site 709991007837 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 709991007838 TPR repeat; Region: TPR_11; pfam13414 709991007839 binding surface 709991007840 TPR motif; other site 709991007841 TPR repeat; Region: TPR_11; pfam13414 709991007842 TPR repeat; Region: TPR_11; pfam13414 709991007843 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 709991007844 TPR motif; other site 709991007845 binding surface 709991007846 TPR repeat; Region: TPR_11; pfam13414 709991007847 TPR repeat; Region: TPR_11; pfam13414 709991007848 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 709991007849 binding surface 709991007850 TPR motif; other site 709991007851 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 709991007852 TPR motif; other site 709991007853 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991007854 binding surface 709991007855 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 709991007856 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 709991007857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007858 catalytic residue [active] 709991007859 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 709991007860 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 709991007861 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991007862 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 709991007863 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 709991007864 active site 709991007865 ADP/pyrophosphate binding site [chemical binding]; other site 709991007866 dimerization interface [polypeptide binding]; other site 709991007867 allosteric effector site; other site 709991007868 fructose-1,6-bisphosphate binding site; other site 709991007869 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 709991007870 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 709991007871 active site 709991007872 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 709991007873 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007874 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007875 DNA binding residues [nucleotide binding] 709991007876 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007877 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 709991007878 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 709991007879 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 709991007880 active site 709991007881 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 709991007882 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 709991007883 putative hydrophobic ligand binding site [chemical binding]; other site 709991007884 putative Hsp90 binding residues [polypeptide binding]; other site 709991007885 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 709991007886 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991007887 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 709991007888 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 709991007889 active site 709991007890 catalytic tetrad [active] 709991007891 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991007892 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991007893 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991007894 DNA binding residues [nucleotide binding] 709991007895 FecR protein; Region: FecR; pfam04773 709991007896 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991007897 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007898 catalytic residues [active] 709991007899 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991007900 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991007901 catalytic residues [active] 709991007902 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991007903 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 709991007904 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 709991007905 motif II; other site 709991007906 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991007907 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 709991007908 RNA/DNA binding site [nucleotide binding]; other site 709991007909 RRM dimerization site [polypeptide binding]; other site 709991007910 thiamine-monophosphate kinase; Region: thiL; TIGR01379 709991007911 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 709991007912 ATP binding site [chemical binding]; other site 709991007913 dimerization interface [polypeptide binding]; other site 709991007914 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 709991007915 putative ABC transporter; Region: ycf24; CHL00085 709991007916 FeS assembly ATPase SufC; Region: sufC; TIGR01978 709991007917 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 709991007918 Walker A/P-loop; other site 709991007919 ATP binding site [chemical binding]; other site 709991007920 Q-loop/lid; other site 709991007921 ABC transporter signature motif; other site 709991007922 Walker B; other site 709991007923 D-loop; other site 709991007924 H-loop/switch region; other site 709991007925 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 709991007926 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 709991007927 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 709991007928 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 709991007929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 709991007930 catalytic residue [active] 709991007931 Fe-S metabolism associated domain; Region: SufE; cl00951 709991007932 Domain of unknown function DUF59; Region: DUF59; cl00941 709991007933 Sporulation related domain; Region: SPOR; cl10051 709991007934 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 709991007935 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 709991007936 FeS/SAM binding site; other site 709991007937 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 709991007938 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 709991007939 4Fe-4S binding domain; Region: Fer4; cl02805 709991007940 4Fe-4S binding domain; Region: Fer4; cl02805 709991007941 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 709991007942 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 709991007943 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 709991007944 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 709991007945 4Fe-4S binding domain; Region: Fer4; cl02805 709991007946 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 709991007947 4Fe-4S binding domain; Region: Fer4; cl02805 709991007948 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 709991007949 Putative Fe-S cluster; Region: FeS; pfam04060 709991007950 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 709991007951 dimer interface [polypeptide binding]; other site 709991007952 [2Fe-2S] cluster binding site [ion binding]; other site 709991007953 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 709991007954 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 709991007955 Protein export membrane protein; Region: SecD_SecF; cl14618 709991007956 Protein export membrane protein; Region: SecD_SecF; cl14618 709991007957 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 709991007958 catalytic motif [active] 709991007959 Catalytic residue [active] 709991007960 malate dehydrogenase; Reviewed; Region: PRK06223 709991007961 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 709991007962 dimer interface [polypeptide binding]; other site 709991007963 NAD(P) binding site [chemical binding]; other site 709991007964 tetramer (dimer of dimers) interface [polypeptide binding]; other site 709991007965 substrate binding site [chemical binding]; other site 709991007966 aspartate aminotransferase; Provisional; Region: PRK07568 709991007967 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 709991007968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991007969 homodimer interface [polypeptide binding]; other site 709991007970 catalytic residue [active] 709991007971 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 709991007972 MatE; Region: MatE; cl10513 709991007973 MatE; Region: MatE; cl10513 709991007974 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 709991007975 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 709991007976 ATP-grasp domain; Region: ATP-grasp_4; cl03087 709991007977 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 709991007978 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 709991007979 Ligand Binding Site [chemical binding]; other site 709991007980 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; cl15754 709991007981 GldH lipoprotein; Region: GldH_lipo; cl11905 709991007982 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 709991007983 dimer interface [polypeptide binding]; other site 709991007984 catalytic triad [active] 709991007985 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 709991007986 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 709991007987 active site 709991007988 HIGH motif; other site 709991007989 KMSKS motif; other site 709991007990 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 709991007991 tRNA binding surface [nucleotide binding]; other site 709991007992 anticodon binding site; other site 709991007993 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 709991007994 dimer interface [polypeptide binding]; other site 709991007995 putative tRNA-binding site [nucleotide binding]; other site 709991007996 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991007997 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991007998 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 709991007999 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 709991008000 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 709991008001 active site 709991008002 metal binding site [ion binding]; metal-binding site 709991008003 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 709991008004 nucleoside transporter; Region: nupC; TIGR00804 709991008005 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 709991008006 Nucleoside recognition; Region: Gate; cl00486 709991008007 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 709991008008 AmpG-related permease; Region: 2A0125; TIGR00901 709991008009 muropeptide transporter; Validated; Region: ampG; PRK11010 709991008010 Stage II sporulation protein; Region: SpoIID; pfam08486 709991008011 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 709991008012 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 709991008013 nucleotide binding site/active site [active] 709991008014 HIT family signature motif; other site 709991008015 catalytic residue [active] 709991008016 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 709991008017 active site 709991008018 RecX family; Region: RecX; cl00936 709991008019 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 709991008020 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 709991008021 S-adenosylmethionine binding site [chemical binding]; other site 709991008022 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 709991008023 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 709991008024 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 709991008025 putative active site [active] 709991008026 catalytic site [active] 709991008027 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 709991008028 putative active site [active] 709991008029 catalytic site [active] 709991008030 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 709991008031 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 709991008032 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 709991008033 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 709991008034 active site 709991008035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991008036 dimer interface [polypeptide binding]; other site 709991008037 substrate binding site [chemical binding]; other site 709991008038 catalytic residues [active] 709991008039 mutatrotase, YjhT family; Region: muta_rot_YjhT; TIGR03547 709991008040 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 709991008041 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 709991008042 IHF dimer interface [polypeptide binding]; other site 709991008043 TfoX N-terminal domain; Region: TfoX_N; cl01167 709991008044 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_10; cd07251 709991008045 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 709991008046 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991008047 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991008048 Virulence-associated protein E; Region: VirE; pfam05272 709991008049 CHC2 zinc finger; Region: zf-CHC2; cl15369 709991008050 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 709991008051 Protein of unknown function (DUF3408); Region: DUF3408; pfam11888 709991008052 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 709991008053 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 709991008054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991008055 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 709991008056 glycerol kinase; Provisional; Region: glpK; PRK00047 709991008057 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 709991008058 N- and C-terminal domain interface [polypeptide binding]; other site 709991008059 active site 709991008060 MgATP binding site [chemical binding]; other site 709991008061 catalytic site [active] 709991008062 metal binding site [ion binding]; metal-binding site 709991008063 glycerol binding site [chemical binding]; other site 709991008064 homotetramer interface [polypeptide binding]; other site 709991008065 homodimer interface [polypeptide binding]; other site 709991008066 FBP binding site [chemical binding]; other site 709991008067 protein IIAGlc interface [polypeptide binding]; other site 709991008068 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 709991008069 amphipathic channel; other site 709991008070 Asn-Pro-Ala signature motifs; other site 709991008071 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 709991008072 Helix-turn-helix domains; Region: HTH; cl00088 709991008073 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 709991008074 Protein of unknown function (DUF328); Region: DUF328; cl01143 709991008075 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 709991008076 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 709991008077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991008078 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 709991008079 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 709991008080 Cysteine-rich domain; Region: CCG; pfam02754 709991008081 Cysteine-rich domain; Region: CCG; pfam02754 709991008082 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 709991008083 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 709991008084 putative substrate translocation pore; other site 709991008085 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991008086 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 709991008087 FOG: WD40-like repeat [Function unknown]; Region: COG1520 709991008088 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 709991008089 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 709991008090 putative substrate translocation pore; other site 709991008091 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 709991008092 active site 709991008093 catalytic site [active] 709991008094 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 709991008095 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 709991008096 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 709991008097 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 709991008098 ATP binding site [chemical binding]; other site 709991008099 putative Mg++ binding site [ion binding]; other site 709991008100 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 709991008101 nucleotide binding region [chemical binding]; other site 709991008102 ATP-binding site [chemical binding]; other site 709991008103 TRCF domain; Region: TRCF; cl04088 709991008104 Type III pantothenate kinase; Region: Pan_kinase; cl09130 709991008105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 709991008106 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 709991008107 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 709991008108 Domain of unknown function DUF21; Region: DUF21; pfam01595 709991008109 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 709991008110 Transporter associated domain; Region: CorC_HlyC; cl08393 709991008111 Transposase domain (DUF772); Region: DUF772; cl15789 709991008112 Transposase domain (DUF772); Region: DUF772; cl15789 709991008113 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 709991008114 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 709991008115 Substrate binding site; other site 709991008116 Permease; Region: Permease; cl00510 709991008117 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 709991008118 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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...; Region: ABC_Org_Solvent_Resistant; cd03261 709991008119 Walker A/P-loop; other site 709991008120 ATP binding site [chemical binding]; other site 709991008121 Q-loop/lid; other site 709991008122 ABC transporter signature motif; other site 709991008123 Walker B; other site 709991008124 D-loop; other site 709991008125 H-loop/switch region; other site 709991008126 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 709991008127 PspC domain; Region: PspC; cl00864 709991008128 Helix-turn-helix domains; Region: HTH; cl00088 709991008129 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 709991008130 Sulfatase; Region: Sulfatase; cl10460 709991008131 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 709991008132 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 709991008133 active site 709991008134 NTP binding site [chemical binding]; other site 709991008135 metal binding triad [ion binding]; metal-binding site 709991008136 antibiotic binding site [chemical binding]; other site 709991008137 Protein of unknown function DUF86; Region: DUF86; cl01031 709991008138 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 709991008139 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 709991008140 Predicted permeases [General function prediction only]; Region: COG0701 709991008141 Predicted permease; Region: DUF318; pfam03773 709991008142 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 709991008143 catalytic residues [active] 709991008144 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 709991008145 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991008146 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 709991008147 dimerization interface [polypeptide binding]; other site 709991008148 putative DNA binding site [nucleotide binding]; other site 709991008149 putative Zn2+ binding site [ion binding]; other site 709991008150 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991008151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008152 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 709991008153 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 709991008154 metal-binding site [ion binding] 709991008155 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 709991008156 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991008157 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 709991008158 metal-binding site [ion binding] 709991008159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991008160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991008161 DDE superfamily endonuclease; Region: DDE_5; cl02413 709991008162 BRO family, N-terminal domain; Region: Bro-N; cl10591 709991008163 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 709991008164 putative FMN binding site [chemical binding]; other site 709991008165 NADPH bind site [chemical binding]; other site 709991008166 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 709991008167 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 709991008168 active site 709991008169 metal binding site [ion binding]; metal-binding site 709991008170 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 709991008171 potassium/proton antiporter; Reviewed; Region: PRK05326 709991008172 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008173 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008174 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008175 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008176 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008177 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991008178 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008179 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008180 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991008181 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991008182 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991008183 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 709991008184 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 709991008185 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 709991008186 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 709991008187 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 709991008188 signal recognition particle protein; Provisional; Region: PRK10867 709991008189 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 709991008190 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 709991008191 P loop; other site 709991008192 GTP binding site [chemical binding]; other site 709991008193 Signal peptide binding domain; Region: SRP_SPB; pfam02978 709991008194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 709991008195 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 709991008196 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 709991008197 homodimer interface [polypeptide binding]; other site 709991008198 NADP binding site [chemical binding]; other site 709991008199 substrate binding site [chemical binding]; other site 709991008200 Nucleoside recognition; Region: Gate; cl00486 709991008201 Nucleoside recognition; Region: Gate; cl00486 709991008202 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 709991008203 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 709991008204 MarC family integral membrane protein; Region: MarC; cl00919 709991008205 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008207 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991008208 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 709991008209 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 709991008210 fec operon regulator FecR; Reviewed; Region: PRK09774 709991008211 FecR protein; Region: FecR; pfam04773 709991008212 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991008213 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008214 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008215 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008216 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008217 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991008218 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991008219 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008220 catalytic residues [active] 709991008221 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 709991008222 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008223 catalytic residues [active] 709991008224 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008225 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008226 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991008227 DNA binding residues [nucleotide binding] 709991008228 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 709991008229 FecR protein; Region: FecR; pfam04773 709991008230 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991008231 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 709991008232 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991008233 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008234 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008235 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008236 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008237 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991008238 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 709991008239 catalytic residues [active] 709991008240 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008241 catalytic residues [active] 709991008242 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 709991008243 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 709991008244 FAD binding site [chemical binding]; other site 709991008245 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 709991008246 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 709991008247 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 709991008248 substrate binding pocket [chemical binding]; other site 709991008249 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 709991008250 B12 binding site [chemical binding]; other site 709991008251 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 709991008252 ApbE family; Region: ApbE; cl00643 709991008253 NIL domain; Region: NIL; cl09633 709991008254 4Fe-4S binding domain; Region: Fer4; cl02805 709991008255 Domain of unknown function DUF39; Region: DUF39; cl14897 709991008256 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991008257 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 709991008258 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 709991008259 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 709991008260 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 709991008261 Surface antigen; Region: Bac_surface_Ag; cl03097 709991008262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 709991008263 Histidine kinase; Region: HisKA_3; pfam07730 709991008264 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 709991008265 ATP binding site [chemical binding]; other site 709991008266 Mg2+ binding site [ion binding]; other site 709991008267 G-X-G motif; other site 709991008268 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 709991008269 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 709991008270 active site 709991008271 phosphorylation site [posttranslational modification] 709991008272 intermolecular recognition site; other site 709991008273 dimerization interface [polypeptide binding]; other site 709991008274 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991008275 DNA binding residues [nucleotide binding] 709991008276 dimerization interface [polypeptide binding]; other site 709991008277 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 709991008278 Substrate binding site; other site 709991008279 metal-binding site 709991008280 Family of unknown function (DUF490); Region: DUF490; pfam04357 709991008281 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 709991008282 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 709991008283 Surface antigen; Region: Bac_surface_Ag; cl03097 709991008284 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 709991008285 catalytic site [active] 709991008286 putative active site [active] 709991008287 putative substrate binding site [chemical binding]; other site 709991008288 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 709991008289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991008290 active site 709991008291 phosphorylation site [posttranslational modification] 709991008292 intermolecular recognition site; other site 709991008293 dimerization interface [polypeptide binding]; other site 709991008294 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991008295 dimer interface [polypeptide binding]; other site 709991008296 phosphorylation site [posttranslational modification] 709991008297 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 709991008298 ATP binding site [chemical binding]; other site 709991008299 Mg2+ binding site [ion binding]; other site 709991008300 G-X-G motif; other site 709991008301 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 709991008302 GAF domain; Region: GAF; cl15785 709991008303 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991008304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008305 Archaeal ATPase; Region: Arch_ATPase; pfam01637 709991008306 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 709991008307 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 709991008308 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 709991008309 Protein of unknown function; Region: DUF3971; pfam13116 709991008310 AsmA-like C-terminal region; Region: AsmA_2; cl15864 709991008311 AsmA-like C-terminal region; Region: AsmA_2; cl15864 709991008312 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; cl00207 709991008313 metal-binding site [ion binding] 709991008314 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 709991008315 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 709991008316 metal-binding site [ion binding] 709991008317 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 709991008318 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 709991008319 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 709991008320 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 709991008321 Zn binding site [ion binding]; other site 709991008322 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 709991008323 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 709991008324 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 709991008325 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 709991008326 RNA binding site [nucleotide binding]; other site 709991008327 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 709991008328 putative metal binding site [ion binding]; other site 709991008329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008330 Walker A/P-loop; other site 709991008331 ATP binding site [chemical binding]; other site 709991008332 Q-loop/lid; other site 709991008333 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 709991008334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008335 Walker A/P-loop; other site 709991008336 ATP binding site [chemical binding]; other site 709991008337 Q-loop/lid; other site 709991008338 ABC transporter signature motif; other site 709991008339 Walker B; other site 709991008340 D-loop; other site 709991008341 H-loop/switch region; other site 709991008342 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991008343 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 709991008344 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 709991008345 EamA-like transporter family; Region: EamA; cl01037 709991008346 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 709991008347 EamA-like transporter family; Region: EamA; cl01037 709991008348 MarC family integral membrane protein; Region: MarC; cl00919 709991008349 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 709991008350 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 709991008351 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 709991008352 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 709991008353 active site 709991008354 phosphorylation site [posttranslational modification] 709991008355 intermolecular recognition site; other site 709991008356 dimerization interface [polypeptide binding]; other site 709991008357 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 709991008358 Walker A motif; other site 709991008359 ATP binding site [chemical binding]; other site 709991008360 Walker B motif; other site 709991008361 arginine finger; other site 709991008362 Helix-turn-helix domains; Region: HTH; cl00088 709991008363 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991008364 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008365 catalytic residues [active] 709991008366 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008367 catalytic residues [active] 709991008368 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 709991008369 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 709991008370 substrate-cofactor binding pocket; other site 709991008371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991008372 catalytic residue [active] 709991008373 Predicted peptidase [General function prediction only]; Region: COG4099 709991008374 putative transposase OrfB; Reviewed; Region: PHA02517 709991008375 HTH-like domain; Region: HTH_21; pfam13276 709991008376 Integrase core domain; Region: rve; cl01316 709991008377 Integrase core domain; Region: rve_3; cl15866 709991008378 Helix-turn-helix domains; Region: HTH; cl00088 709991008379 Helix-turn-helix domains; Region: HTH; cl00088 709991008380 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 709991008381 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991008382 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008383 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991008384 DNA binding residues [nucleotide binding] 709991008385 NigD-like protein; Region: NigD; pfam12667 709991008386 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 709991008387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008388 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008389 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008390 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991008391 DNA binding residues [nucleotide binding] 709991008392 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 709991008393 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 709991008394 catalytic motif [active] 709991008395 Zn binding site [ion binding]; other site 709991008396 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 709991008397 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 709991008398 Lumazine binding domain; Region: Lum_binding; pfam00677 709991008399 Lumazine binding domain; Region: Lum_binding; pfam00677 709991008400 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 709991008401 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 709991008402 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 709991008403 dimerization interface [polypeptide binding]; other site 709991008404 active site 709991008405 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 709991008406 homopentamer interface [polypeptide binding]; other site 709991008407 active site 709991008408 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 709991008409 dimer interface [polypeptide binding]; other site 709991008410 catalytic triad [active] 709991008411 peroxidatic and resolving cysteines [active] 709991008412 membrane protein insertase; Provisional; Region: PRK01318 709991008413 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 709991008414 CTP synthetase; Validated; Region: pyrG; PRK05380 709991008415 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 709991008416 Catalytic site [active] 709991008417 active site 709991008418 UTP binding site [chemical binding]; other site 709991008419 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 709991008420 active site 709991008421 putative oxyanion hole; other site 709991008422 catalytic triad [active] 709991008423 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 709991008424 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 709991008425 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 709991008426 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 709991008427 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 709991008428 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 709991008429 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 709991008430 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 709991008431 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 709991008432 putative acyl-acceptor binding pocket; other site 709991008433 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 709991008434 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 709991008435 Probable Catalytic site; other site 709991008436 metal-binding site 709991008437 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 709991008438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008439 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991008440 DNA binding residues [nucleotide binding] 709991008441 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991008442 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 709991008443 active site 709991008444 phosphorylation site [posttranslational modification] 709991008445 intermolecular recognition site; other site 709991008446 dimerization interface [polypeptide binding]; other site 709991008447 Helix-turn-helix domains; Region: HTH; cl00088 709991008448 DNA binding site [nucleotide binding] 709991008449 NVEALA protein; Region: NVEALA; pfam14055 709991008450 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 709991008451 dihydrodipicolinate synthase; Region: dapA; TIGR00674 709991008452 dimer interface [polypeptide binding]; other site 709991008453 active site 709991008454 catalytic residue [active] 709991008455 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 709991008456 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 709991008457 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991008458 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 709991008459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008460 Walker A/P-loop; other site 709991008461 ATP binding site [chemical binding]; other site 709991008462 Q-loop/lid; other site 709991008463 ABC transporter signature motif; other site 709991008464 Walker B; other site 709991008465 D-loop; other site 709991008466 H-loop/switch region; other site 709991008467 NVEALA protein; Region: NVEALA; pfam14055 709991008468 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991008469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 709991008470 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 709991008471 ATP binding site [chemical binding]; other site 709991008472 Mg2+ binding site [ion binding]; other site 709991008473 G-X-G motif; other site 709991008474 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 709991008475 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 709991008476 active site 709991008477 phosphorylation site [posttranslational modification] 709991008478 intermolecular recognition site; other site 709991008479 dimerization interface [polypeptide binding]; other site 709991008480 Helix-turn-helix domains; Region: HTH; cl00088 709991008481 DNA binding site [nucleotide binding] 709991008482 Transcriptional regulators [Transcription]; Region: PurR; COG1609 709991008483 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 709991008484 DNA binding site [nucleotide binding] 709991008485 domain linker motif; other site 709991008486 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 709991008487 dimerization interface [polypeptide binding]; other site 709991008488 ligand binding site [chemical binding]; other site 709991008489 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 709991008490 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 709991008491 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 709991008492 Zn2+ binding site [ion binding]; other site 709991008493 Mg2+ binding site [ion binding]; other site 709991008494 Acyl transferase domain; Region: Acyl_transf_1; cl08282 709991008495 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 709991008496 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 709991008497 homodecamer interface [polypeptide binding]; other site 709991008498 GTP cyclohydrolase I; Provisional; Region: PLN03044 709991008499 active site 709991008500 putative catalytic site residues [active] 709991008501 zinc binding site [ion binding]; other site 709991008502 GTP-CH-I/GFRP interaction surface; other site 709991008503 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 709991008504 non-specific DNA binding site [nucleotide binding]; other site 709991008505 salt bridge; other site 709991008506 sequence-specific DNA binding site [nucleotide binding]; other site 709991008507 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 709991008508 Transposase domain (DUF772); Region: DUF772; cl15789 709991008509 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 709991008510 Transposase domain (DUF772); Region: DUF772; cl15789 709991008511 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 709991008512 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 709991008513 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 709991008514 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 709991008515 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 709991008516 diaminopimelate decarboxylase; Region: lysA; TIGR01048 709991008517 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 709991008518 active site 709991008519 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 709991008520 substrate binding site [chemical binding]; other site 709991008521 catalytic residues [active] 709991008522 dimer interface [polypeptide binding]; other site 709991008523 aspartate kinase III; Validated; Region: PRK09084 709991008524 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 709991008525 putative catalytic residues [active] 709991008526 nucleotide binding site [chemical binding]; other site 709991008527 aspartate binding site [chemical binding]; other site 709991008528 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 709991008529 dimer interface [polypeptide binding]; other site 709991008530 allosteric regulatory binding pocket; other site 709991008531 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 709991008532 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 709991008533 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 709991008534 S-adenosylmethionine binding site [chemical binding]; other site 709991008535 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 709991008536 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 709991008537 S-adenosylmethionine binding site [chemical binding]; other site 709991008538 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 709991008539 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 709991008540 FAD binding domain; Region: FAD_binding_4; pfam01565 709991008541 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 709991008542 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 709991008543 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 709991008544 active site 709991008545 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 709991008546 active site 2 [active] 709991008547 active site 1 [active] 709991008548 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 709991008549 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 709991008550 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 709991008551 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 709991008552 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 709991008553 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 709991008554 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 709991008555 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 709991008556 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 709991008557 Walker A/P-loop; other site 709991008558 ATP binding site [chemical binding]; other site 709991008559 Q-loop/lid; other site 709991008560 ABC transporter signature motif; other site 709991008561 Walker B; other site 709991008562 D-loop; other site 709991008563 H-loop/switch region; other site 709991008564 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 709991008565 binding surface 709991008566 TPR motif; other site 709991008567 thrombosponding-related protein; Provisional; Region: PTZ00087 709991008568 Helix-turn-helix domain; Region: HTH_18; pfam12833 709991008569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991008570 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991008571 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008572 catalytic residues [active] 709991008573 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008574 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008575 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008576 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991008577 trigger factor; Region: tig; TIGR00115 709991008578 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 709991008579 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 709991008580 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 709991008581 O-methyltransferase; Region: Methyltransf_3; pfam01596 709991008582 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 709991008583 S-adenosylmethionine binding site [chemical binding]; other site 709991008584 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 709991008585 dimerization interface [polypeptide binding]; other site 709991008586 active site 709991008587 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 709991008588 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 709991008589 Sulfatase; Region: Sulfatase; cl10460 709991008590 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 709991008591 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 709991008592 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 709991008593 folate binding site [chemical binding]; other site 709991008594 NADP+ binding site [chemical binding]; other site 709991008595 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991008596 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 709991008597 putative metal binding site; other site 709991008598 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 709991008599 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991008600 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 709991008601 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 709991008602 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 709991008603 active site 709991008604 metal-binding site 709991008605 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 709991008606 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 709991008607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 709991008608 homodimer interface [polypeptide binding]; other site 709991008609 catalytic residue [active] 709991008610 O-Antigen ligase; Region: Wzy_C; cl04850 709991008611 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 709991008612 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 709991008613 putative active site [active] 709991008614 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 709991008615 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 709991008616 substrate binding site; other site 709991008617 dimer interface; other site 709991008618 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 709991008619 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 709991008620 NAD binding site [chemical binding]; other site 709991008621 substrate binding site [chemical binding]; other site 709991008622 homodimer interface [polypeptide binding]; other site 709991008623 active site 709991008624 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 709991008625 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 709991008626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 709991008627 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 709991008628 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 709991008629 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 709991008630 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 709991008631 S-adenosylmethionine binding site [chemical binding]; other site 709991008632 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 709991008633 putative metal binding site [ion binding]; other site 709991008634 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 709991008635 HSP70 interaction site [polypeptide binding]; other site 709991008636 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 709991008637 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 709991008638 CoA-binding site [chemical binding]; other site 709991008639 ATP-binding [chemical binding]; other site 709991008640 hypothetical protein; Provisional; Region: PHA02941 709991008641 Preprotein translocase subunit; Region: YajC; cl00806 709991008642 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 709991008643 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 709991008644 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 709991008645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 709991008646 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 709991008647 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 709991008648 binding surface 709991008649 TPR motif; other site 709991008650 membrane ATPase/protein kinase; Provisional; Region: PRK09435 709991008651 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 709991008652 Walker A; other site 709991008653 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 709991008654 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 709991008655 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 709991008656 Transposase domain (DUF772); Region: DUF772; cl15789 709991008657 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991008658 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991008659 Protein of unknown function (DUF3988); Region: DUF3988; pfam13149 709991008660 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 709991008661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991008662 DDE superfamily endonuclease; Region: DDE_5; cl02413 709991008663 Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems; Region: PBP1_ABC_transporter_GCPR_C_like; cd04509 709991008664 Peptidase C13 family; Region: Peptidase_C13; cl02159 709991008665 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 709991008666 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 709991008667 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 709991008668 Transposase domain (DUF772); Region: DUF772; cl15789 709991008669 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 709991008670 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008671 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008672 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 709991008673 DNA binding residues [nucleotide binding] 709991008674 FecR protein; Region: FecR; pfam04773 709991008675 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991008676 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 709991008677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008678 Walker A/P-loop; other site 709991008679 ATP binding site [chemical binding]; other site 709991008680 Q-loop/lid; other site 709991008681 ABC transporter signature motif; other site 709991008682 Walker B; other site 709991008683 D-loop; other site 709991008684 H-loop/switch region; other site 709991008685 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991008686 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 709991008687 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 709991008688 ABC-2 type transporter; Region: ABC2_membrane; cl11417 709991008689 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 709991008690 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 709991008691 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991008692 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008693 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008694 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008695 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008696 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991008697 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008698 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008699 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991008700 DNA binding residues [nucleotide binding] 709991008701 FecR protein; Region: FecR; pfam04773 709991008702 Secretin and TonB N terminus short domain; Region: STN; cl06624 709991008703 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008704 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008705 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008706 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008707 starch binding outer membrane protein SusD; Region: SusD; cd08977 709991008708 Transposase domain (DUF772); Region: DUF772; cl15789 709991008709 Transposase domain (DUF772); Region: DUF772; cl15789 709991008710 Transposase domain (DUF772); Region: DUF772; cl15789 709991008711 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 709991008712 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 709991008713 catalytic residues [active] 709991008714 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991008715 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008716 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008717 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008718 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008719 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008720 FecR protein; Region: FecR; pfam04773 709991008721 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 709991008722 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 709991008723 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 709991008724 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 709991008725 DNA binding residues [nucleotide binding] 709991008726 Transposase [DNA replication, recombination, and repair]; Region: COG5421 709991008727 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 709991008728 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 709991008729 DNA primase, catalytic core; Region: dnaG; TIGR01391 709991008730 CHC2 zinc finger; Region: zf-CHC2; cl15369 709991008731 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 709991008732 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 709991008733 active site 709991008734 metal binding site [ion binding]; metal-binding site 709991008735 interdomain interaction site; other site 709991008736 polycystin cation channel protein; Region: PCC; TIGR00864 709991008737 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991008738 Receptor L domain; Region: Recep_L_domain; pfam01030 709991008739 Uncharacterized conserved protein [Function unknown]; Region: COG3391 709991008740 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 709991008741 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008742 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 709991008743 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 709991008744 putative ligand binding site [chemical binding]; other site 709991008745 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991008746 dimer interface [polypeptide binding]; other site 709991008747 putative PBP binding regions; other site 709991008748 ABC-ATPase subunit interface; other site 709991008749 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 709991008750 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 709991008751 Walker A/P-loop; other site 709991008752 ATP binding site [chemical binding]; other site 709991008753 Q-loop/lid; other site 709991008754 ABC transporter signature motif; other site 709991008755 Walker B; other site 709991008756 D-loop; other site 709991008757 H-loop/switch region; other site 709991008758 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 709991008759 AAA domain; Region: AAA_21; pfam13304 709991008760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 709991008761 Walker B; other site 709991008762 D-loop; other site 709991008763 H-loop/switch region; other site 709991008764 RloB-like protein; Region: RloB; pfam13707 709991008765 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 709991008766 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 709991008767 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 709991008768 Walker A/P-loop; other site 709991008769 ATP binding site [chemical binding]; other site 709991008770 Q-loop/lid; other site 709991008771 ABC transporter signature motif; other site 709991008772 Walker B; other site 709991008773 D-loop; other site 709991008774 H-loop/switch region; other site 709991008775 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 709991008776 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 709991008777 ABC-ATPase subunit interface; other site 709991008778 dimer interface [polypeptide binding]; other site 709991008779 putative PBP binding regions; other site 709991008780 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 709991008781 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 709991008782 putative ligand binding site [chemical binding]; other site 709991008783 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 709991008784 N-terminal plug; other site 709991008785 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 709991008786 ligand-binding site [chemical binding]; other site 709991008787 Uncharacterized conserved protein [Function unknown]; Region: COG3391 709991008788 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 709991008789 Receptor L domain; Region: Recep_L_domain; pfam01030 709991008790 pyruvate phosphate dikinase; Provisional; Region: PRK09279 709991008791 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 709991008792 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 709991008793 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 709991008794 MG2 domain; Region: A2M_N; pfam01835 709991008795 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008796 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008797 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 709991008798 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 709991008799 Uncharacterized conserved protein [Function unknown]; Region: COG3760 709991008800 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 709991008801 putative deacylase active site [active] 709991008802 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 709991008803 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 709991008804 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 709991008805 active site 709991008806 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 709991008807 Two component regulator propeller; Region: Reg_prop; pfam07494 709991008808 Two component regulator propeller; Region: Reg_prop; pfam07494 709991008809 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 709991008810 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 709991008811 dimer interface [polypeptide binding]; other site 709991008812 phosphorylation site [posttranslational modification] 709991008813 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 709991008814 ATP binding site [chemical binding]; other site 709991008815 Mg2+ binding site [ion binding]; other site 709991008816 G-X-G motif; other site 709991008817 Response regulator receiver domain; Region: Response_reg; pfam00072 709991008818 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 709991008819 active site 709991008820 phosphorylation site [posttranslational modification] 709991008821 intermolecular recognition site; other site 709991008822 dimerization interface [polypeptide binding]; other site 709991008823 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 709991008824 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 709991008825 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 709991008826 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 709991008827 FeS/SAM binding site; other site 709991008828 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 709991008829 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 709991008830 dimer interface [polypeptide binding]; other site 709991008831 active site 709991008832 glycine loop; other site 709991008833 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 709991008834 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 709991008835 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 709991008836 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 709991008837 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991008838 starch binding outer membrane protein SusD; Region: SusD; cl15876 709991008839 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 709991008840 Domain of unknown function (DUF1735); Region: DUF1735; pfam08522 709991008841 O-Antigen ligase; Region: Wzy_C; cl04850 709991008842 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 709991008843 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 709991008844 binding surface 709991008845 TPR motif; other site 709991008846 Tetratricopeptide repeat; Region: TPR_12; pfam13424 709991008847 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 709991008848 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 709991008849 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 709991008850 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 709991008851 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 709991008852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 709991008853 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 709991008854 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 709991008855 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 709991008856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 709991008857 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 709991008858 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 709991008859 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 709991008860 active site 709991008861 metal binding site [ion binding]; metal-binding site 709991008862 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 709991008863 mce related protein; Region: MCE; pfam02470