-- dump date 20140619_061328 -- class Genbank::misc_feature -- table misc_feature_note -- id note 138119000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 138119000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 138119000003 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 138119000004 Walker A motif; other site 138119000005 ATP binding site [chemical binding]; other site 138119000006 Walker B motif; other site 138119000007 arginine finger; other site 138119000008 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 138119000009 DnaA box-binding interface [nucleotide binding]; other site 138119000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 138119000011 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 138119000012 putative DNA binding surface [nucleotide binding]; other site 138119000013 dimer interface [polypeptide binding]; other site 138119000014 beta-clamp/clamp loader binding surface; other site 138119000015 beta-clamp/translesion DNA polymerase binding surface; other site 138119000016 recombination protein F; Reviewed; Region: recF; PRK00064 138119000017 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 138119000018 Walker A/P-loop; other site 138119000019 ATP binding site [chemical binding]; other site 138119000020 Q-loop/lid; other site 138119000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000022 ABC transporter signature motif; other site 138119000023 Walker B; other site 138119000024 D-loop; other site 138119000025 H-loop/switch region; other site 138119000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 138119000027 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 138119000028 ATP binding site [chemical binding]; other site 138119000029 Mg2+ binding site [ion binding]; other site 138119000030 G-X-G motif; other site 138119000031 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 138119000032 anchoring element; other site 138119000033 dimer interface [polypeptide binding]; other site 138119000034 ATP binding site [chemical binding]; other site 138119000035 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 138119000036 active site 138119000037 putative metal-binding site [ion binding]; other site 138119000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 138119000039 DNA gyrase subunit A; Validated; Region: PRK05560 138119000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 138119000041 CAP-like domain; other site 138119000042 active site 138119000043 primary dimer interface [polypeptide binding]; other site 138119000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119000050 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 138119000051 predicted active site [active] 138119000052 catalytic triad [active] 138119000053 seryl-tRNA synthetase; Provisional; Region: PRK05431 138119000054 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 138119000055 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 138119000056 dimer interface [polypeptide binding]; other site 138119000057 active site 138119000058 motif 1; other site 138119000059 motif 2; other site 138119000060 motif 3; other site 138119000061 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 138119000062 nucleoside/Zn binding site; other site 138119000063 dimer interface [polypeptide binding]; other site 138119000064 catalytic motif [active] 138119000065 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 138119000066 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 138119000067 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 138119000068 Int/Topo IB signature motif; other site 138119000069 PemK-like protein; Region: PemK; pfam02452 138119000070 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 138119000071 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119000072 putative substrate translocation pore; other site 138119000073 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 138119000074 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 138119000075 putative valine binding site [chemical binding]; other site 138119000076 dimer interface [polypeptide binding]; other site 138119000077 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 138119000078 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 138119000079 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119000080 PYR/PP interface [polypeptide binding]; other site 138119000081 dimer interface [polypeptide binding]; other site 138119000082 TPP binding site [chemical binding]; other site 138119000083 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119000084 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 138119000085 TPP-binding site [chemical binding]; other site 138119000086 dimer interface [polypeptide binding]; other site 138119000087 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119000088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119000089 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119000090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119000091 Coenzyme A binding pocket [chemical binding]; other site 138119000092 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 138119000093 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 138119000094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119000095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119000096 Coenzyme A binding pocket [chemical binding]; other site 138119000097 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119000098 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119000099 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119000100 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 138119000101 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 138119000102 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119000103 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119000104 WHG domain; Region: WHG; pfam13305 138119000105 Helix-turn-helix domain; Region: HTH_36; pfam13730 138119000106 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 138119000107 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 138119000108 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 138119000109 Toprim-like; Region: Toprim_2; pfam13155 138119000110 active site 138119000111 metal binding site [ion binding]; metal-binding site 138119000112 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 138119000113 Sel1-like repeats; Region: SEL1; smart00671 138119000114 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 138119000115 Sel1-like repeats; Region: SEL1; smart00671 138119000116 Sel1-like repeats; Region: SEL1; smart00671 138119000117 Sel1-like repeats; Region: SEL1; smart00671 138119000118 Sel1-like repeats; Region: SEL1; smart00671 138119000119 Sel1-like repeats; Region: SEL1; smart00671 138119000120 Sel1-like repeats; Region: SEL1; smart00671 138119000121 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 138119000122 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119000123 NlpC/P60 family; Region: NLPC_P60; cl17555 138119000124 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119000125 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119000126 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 138119000127 putative active site pocket [active] 138119000128 dimerization interface [polypeptide binding]; other site 138119000129 putative catalytic residue [active] 138119000130 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 138119000131 AAA-like domain; Region: AAA_10; pfam12846 138119000132 Domain of unknown function DUF87; Region: DUF87; pfam01935 138119000133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119000134 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119000135 Chloramphenicol acetyltransferase; Region: CAT; cl02008 138119000136 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 138119000137 AAA domain; Region: AAA_18; pfam13238 138119000138 active site 138119000139 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 138119000140 cofactor binding site; other site 138119000141 DNA binding site [nucleotide binding] 138119000142 substrate interaction site [chemical binding]; other site 138119000143 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 138119000144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119000145 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_23; cd09011 138119000146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 138119000147 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 138119000148 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 138119000149 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 138119000150 putative active site [active] 138119000151 putative NTP binding site [chemical binding]; other site 138119000152 putative nucleic acid binding site [nucleotide binding]; other site 138119000153 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119000154 Type II intron maturase; Region: Intron_maturas2; pfam01348 138119000155 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 138119000156 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119000157 Walker A motif; other site 138119000158 ATP binding site [chemical binding]; other site 138119000159 Walker B motif; other site 138119000160 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 138119000161 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 138119000162 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 138119000163 S-layer homology domain; Region: SLH; pfam00395 138119000164 S-layer homology domain; Region: SLH; pfam00395 138119000165 S-layer homology domain; Region: SLH; pfam00395 138119000166 SpoVG; Region: SpoVG; pfam04026 138119000167 YodL-like; Region: YodL; pfam14191 138119000168 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 138119000169 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 138119000170 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 138119000171 Antirestriction protein (ArdA); Region: ArdA; cl01953 138119000172 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 138119000173 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 138119000174 Abi-like protein; Region: Abi_2; pfam07751 138119000175 Helix-turn-helix domain; Region: HTH_17; pfam12728 138119000176 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119000177 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119000178 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119000179 Helix-turn-helix domain; Region: HTH_17; cl17695 138119000180 Fic family protein [Function unknown]; Region: COG3177 138119000181 Fic/DOC family; Region: Fic; pfam02661 138119000182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119000183 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119000184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119000185 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 138119000186 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 138119000187 Predicted transcriptional regulators [Transcription]; Region: COG1733 138119000188 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 138119000189 Coat F domain; Region: Coat_F; pfam07875 138119000190 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119000191 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119000192 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119000193 ABC transporter; Region: ABC_tran_2; pfam12848 138119000194 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119000195 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 138119000196 non-specific DNA binding site [nucleotide binding]; other site 138119000197 salt bridge; other site 138119000198 sequence-specific DNA binding site [nucleotide binding]; other site 138119000199 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 138119000200 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 138119000201 B12 binding site [chemical binding]; other site 138119000202 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 138119000203 FeS/SAM binding site; other site 138119000204 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119000205 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 138119000206 putative Zn2+ binding site [ion binding]; other site 138119000207 putative DNA binding site [nucleotide binding]; other site 138119000208 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 138119000209 homodimer interaction site [polypeptide binding]; other site 138119000210 cofactor binding site; other site 138119000211 FMN-binding domain; Region: FMN_bind; pfam04205 138119000212 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119000213 Periplasmic binding protein TroA_f. 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_f; cd01139 138119000214 putative ligand binding residues [chemical binding]; other site 138119000215 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119000216 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 138119000217 ABC-ATPase subunit interface; other site 138119000218 dimer interface [polypeptide binding]; other site 138119000219 putative PBP binding regions; other site 138119000220 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119000221 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119000222 Walker A/P-loop; other site 138119000223 ATP binding site [chemical binding]; other site 138119000224 Q-loop/lid; other site 138119000225 ABC transporter signature motif; other site 138119000226 Walker B; other site 138119000227 D-loop; other site 138119000228 H-loop/switch region; other site 138119000229 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 138119000230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119000231 Coenzyme A binding pocket [chemical binding]; other site 138119000232 YoaP-like; Region: YoaP; pfam14268 138119000233 manganese transport transcriptional regulator; Provisional; Region: PRK03902 138119000234 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 138119000235 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 138119000236 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 138119000237 Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins...; Region: TroA; cd01016 138119000238 metal binding site [ion binding]; metal-binding site 138119000239 intersubunit interface [polypeptide binding]; other site 138119000240 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 138119000241 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 138119000242 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 138119000243 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 138119000244 ABC-ATPase subunit interface; other site 138119000245 dimer interface [polypeptide binding]; other site 138119000246 putative PBP binding regions; other site 138119000247 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 138119000248 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 138119000249 ABC-ATPase subunit interface; other site 138119000250 dimer interface [polypeptide binding]; other site 138119000251 putative PBP binding regions; other site 138119000252 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 138119000253 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 138119000254 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119000255 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 138119000256 dimer interface [polypeptide binding]; other site 138119000257 conserved gate region; other site 138119000258 putative PBP binding loops; other site 138119000259 ABC-ATPase subunit interface; other site 138119000260 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 138119000261 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 138119000262 dimer interface [polypeptide binding]; other site 138119000263 conserved gate region; other site 138119000264 putative PBP binding loops; other site 138119000265 ABC-ATPase subunit interface; other site 138119000266 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 138119000267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000268 Walker A/P-loop; other site 138119000269 ATP binding site [chemical binding]; other site 138119000270 Q-loop/lid; other site 138119000271 ABC transporter signature motif; other site 138119000272 Walker B; other site 138119000273 D-loop; other site 138119000274 H-loop/switch region; other site 138119000275 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119000276 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119000277 Walker A/P-loop; other site 138119000278 ATP binding site [chemical binding]; other site 138119000279 Q-loop/lid; other site 138119000280 ABC transporter signature motif; other site 138119000281 Walker B; other site 138119000282 D-loop; other site 138119000283 H-loop/switch region; other site 138119000284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119000285 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119000286 dimerization interface [polypeptide binding]; other site 138119000287 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 138119000288 dimer interface [polypeptide binding]; other site 138119000289 phosphorylation site [posttranslational modification] 138119000290 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 138119000291 ATP binding site [chemical binding]; other site 138119000292 Mg2+ binding site [ion binding]; other site 138119000293 G-X-G motif; other site 138119000294 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119000295 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 138119000296 active site 138119000297 phosphorylation site [posttranslational modification] 138119000298 intermolecular recognition site; other site 138119000299 dimerization interface [polypeptide binding]; other site 138119000300 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 138119000301 DNA binding site [nucleotide binding] 138119000302 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 138119000303 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 138119000304 metal binding site [ion binding]; metal-binding site 138119000305 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119000306 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 138119000307 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 138119000308 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 138119000309 ABC-ATPase subunit interface; other site 138119000310 dimer interface [polypeptide binding]; other site 138119000311 putative PBP binding regions; other site 138119000312 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 138119000313 metal binding site 2 [ion binding]; metal-binding site 138119000314 putative DNA binding helix; other site 138119000315 metal binding site 1 [ion binding]; metal-binding site 138119000316 dimer interface [polypeptide binding]; other site 138119000317 structural Zn2+ binding site [ion binding]; other site 138119000318 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 138119000319 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 138119000320 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 138119000321 Predicted permeases [General function prediction only]; Region: COG0701 138119000322 TIGR03943 family protein; Region: TIGR03943 138119000323 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 138119000324 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 138119000325 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 138119000326 Walker A motif; other site 138119000327 ATP binding site [chemical binding]; other site 138119000328 Walker B motif; other site 138119000329 arginine finger; other site 138119000330 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 138119000331 hypothetical protein; Validated; Region: PRK00153 138119000332 recombination protein RecR; Reviewed; Region: recR; PRK00076 138119000333 RecR protein; Region: RecR; pfam02132 138119000334 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 138119000335 putative active site [active] 138119000336 putative metal-binding site [ion binding]; other site 138119000337 tetramer interface [polypeptide binding]; other site 138119000338 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 138119000339 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 138119000340 dimer interface [polypeptide binding]; other site 138119000341 PYR/PP interface [polypeptide binding]; other site 138119000342 TPP binding site [chemical binding]; other site 138119000343 substrate binding site [chemical binding]; other site 138119000344 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 138119000345 Domain of unknown function; Region: EKR; smart00890 138119000346 4Fe-4S binding domain; Region: Fer4_6; pfam12837 138119000347 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 138119000348 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 138119000349 TPP-binding site [chemical binding]; other site 138119000350 dimer interface [polypeptide binding]; other site 138119000351 AAA domain; Region: AAA_14; pfam13173 138119000352 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119000353 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 138119000354 dinuclear metal binding motif [ion binding]; other site 138119000355 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119000356 Spore germination protein; Region: Spore_permease; cl17796 138119000357 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 138119000358 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 138119000359 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 138119000360 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 138119000361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119000362 catalytic residue [active] 138119000363 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 138119000364 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 138119000365 DNA polymerase III subunit delta'; Validated; Region: PRK08485 138119000366 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 138119000367 Protein of unknown function (DUF972); Region: DUF972; pfam06156 138119000368 Predicted methyltransferases [General function prediction only]; Region: COG0313 138119000369 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 138119000370 putative SAM binding site [chemical binding]; other site 138119000371 putative homodimer interface [polypeptide binding]; other site 138119000372 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 138119000373 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 138119000374 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 138119000375 active site 138119000376 HIGH motif; other site 138119000377 KMSKS motif; other site 138119000378 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 138119000379 tRNA binding surface [nucleotide binding]; other site 138119000380 anticodon binding site; other site 138119000381 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 138119000382 dimer interface [polypeptide binding]; other site 138119000383 putative tRNA-binding site [nucleotide binding]; other site 138119000384 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 138119000385 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 138119000386 active site 138119000387 G5 domain; Region: G5; pfam07501 138119000388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 138119000389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 138119000390 Domain of unknown function (DUF348); Region: DUF348; pfam03990 138119000391 Domain of unknown function (DUF348); Region: DUF348; pfam03990 138119000392 Domain of unknown function (DUF348); Region: DUF348; pfam03990 138119000393 G5 domain; Region: G5; pfam07501 138119000394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 138119000395 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 138119000396 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 138119000397 active site 138119000398 metal binding site [ion binding]; metal-binding site 138119000399 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 138119000400 active site 138119000401 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 138119000402 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 138119000403 putative active site [active] 138119000404 putative metal binding site [ion binding]; other site 138119000405 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 138119000406 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 138119000407 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 138119000408 S-adenosylmethionine binding site [chemical binding]; other site 138119000409 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 138119000410 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 138119000411 FAD binding site [chemical binding]; other site 138119000412 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 138119000413 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 138119000414 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119000415 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119000416 dimerization interface [polypeptide binding]; other site 138119000417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119000418 dimer interface [polypeptide binding]; other site 138119000419 putative CheW interface [polypeptide binding]; other site 138119000420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 138119000421 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 138119000422 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119000423 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119000424 dimerization interface [polypeptide binding]; other site 138119000425 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119000426 dimer interface [polypeptide binding]; other site 138119000427 putative CheW interface [polypeptide binding]; other site 138119000428 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 138119000429 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 138119000430 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 138119000431 YabG peptidase U57; Region: Peptidase_U57; pfam05582 138119000432 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 138119000433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 138119000434 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 138119000435 proposed catalytic triad [active] 138119000436 active site nucleophile [active] 138119000437 cyanophycin synthetase; Provisional; Region: PRK14016 138119000438 ATP-grasp domain; Region: ATP-grasp_4; cl17255 138119000439 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119000440 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119000441 Helix-turn-helix domain; Region: HTH_17; pfam12728 138119000442 Fic family protein [Function unknown]; Region: COG3177 138119000443 Fic/DOC family; Region: Fic; pfam02661 138119000444 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 138119000445 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 138119000446 Transcriptional regulators [Transcription]; Region: GntR; COG1802 138119000447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119000448 DNA-binding site [nucleotide binding]; DNA binding site 138119000449 FCD domain; Region: FCD; pfam07729 138119000450 pur operon repressor; Provisional; Region: PRK09213 138119000451 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 138119000452 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119000453 active site 138119000454 regulatory protein SpoVG; Reviewed; Region: PRK13259 138119000455 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 138119000456 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 138119000457 Substrate binding site; other site 138119000458 Mg++ binding site; other site 138119000459 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 138119000460 active site 138119000461 substrate binding site [chemical binding]; other site 138119000462 CoA binding site [chemical binding]; other site 138119000463 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 138119000464 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 138119000465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119000466 active site 138119000467 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 138119000468 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119000469 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119000470 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 138119000471 non-specific DNA binding site [nucleotide binding]; other site 138119000472 salt bridge; other site 138119000473 sequence-specific DNA binding site [nucleotide binding]; other site 138119000474 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119000475 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 138119000476 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 138119000477 substrate binding pocket [chemical binding]; other site 138119000478 substrate-Mg2+ binding site; other site 138119000479 aspartate-rich region 1; other site 138119000480 aspartate-rich region 2; other site 138119000481 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 138119000482 protein binding site [polypeptide binding]; other site 138119000483 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119000484 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 138119000485 ATP binding site [chemical binding]; other site 138119000486 Mg2+ binding site [ion binding]; other site 138119000487 G-X-G motif; other site 138119000488 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119000489 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 138119000490 active site 138119000491 phosphorylation site [posttranslational modification] 138119000492 intermolecular recognition site; other site 138119000493 dimerization interface [polypeptide binding]; other site 138119000494 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 138119000495 DNA binding residues [nucleotide binding] 138119000496 dimerization interface [polypeptide binding]; other site 138119000497 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 138119000498 putative homodimer interface [polypeptide binding]; other site 138119000499 putative homotetramer interface [polypeptide binding]; other site 138119000500 putative metal binding site [ion binding]; other site 138119000501 putative homodimer-homodimer interface [polypeptide binding]; other site 138119000502 Predicted ATPase [General function prediction only]; Region: COG4637 138119000503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000504 Walker A/P-loop; other site 138119000505 ATP binding site [chemical binding]; other site 138119000506 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 138119000507 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 138119000508 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119000509 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 138119000510 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 138119000511 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119000512 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 138119000513 DNA binding residues [nucleotide binding] 138119000514 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 138119000515 nif11-like leader peptide domain; Region: ocin_TIGR03798 138119000516 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 138119000517 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 138119000518 FeS/SAM binding site; other site 138119000519 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 138119000520 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 138119000521 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 138119000522 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 138119000523 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 138119000524 carboxyltransferase (CT) interaction site; other site 138119000525 biotinylation site [posttranslational modification]; other site 138119000526 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 138119000527 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39D; cd02420 138119000528 putative active site [active] 138119000529 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119000530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000531 Walker A/P-loop; other site 138119000532 ATP binding site [chemical binding]; other site 138119000533 Q-loop/lid; other site 138119000534 ABC transporter signature motif; other site 138119000535 Walker B; other site 138119000536 D-loop; other site 138119000537 H-loop/switch region; other site 138119000538 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 138119000539 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119000540 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000541 Walker A/P-loop; other site 138119000542 ATP binding site [chemical binding]; other site 138119000543 Q-loop/lid; other site 138119000544 ABC transporter signature motif; other site 138119000545 Walker B; other site 138119000546 D-loop; other site 138119000547 H-loop/switch region; other site 138119000548 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 138119000549 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119000550 DNA binding residues [nucleotide binding] 138119000551 dimer interface [polypeptide binding]; other site 138119000552 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 138119000553 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 138119000554 putative FMN binding site [chemical binding]; other site 138119000555 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119000556 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 138119000557 PRC-barrel domain; Region: PRC; pfam05239 138119000558 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 138119000559 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 138119000560 putative active site [active] 138119000561 catalytic residue [active] 138119000562 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119000563 putative active site [active] 138119000564 PBP superfamily domain; Region: PBP_like_2; pfam12849 138119000565 PIN domain; Region: PIN_3; pfam13470 138119000566 AAA domain; Region: AAA_14; pfam13173 138119000567 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119000568 Archaeal ATPase; Region: Arch_ATPase; pfam01637 138119000569 AAA domain; Region: AAA_14; pfam13173 138119000570 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119000571 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 138119000572 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119000573 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 138119000574 putative [Fe4-S4] binding site [ion binding]; other site 138119000575 putative molybdopterin cofactor binding site [chemical binding]; other site 138119000576 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119000577 putative molybdopterin cofactor binding site; other site 138119000578 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119000579 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119000580 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 138119000581 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 138119000582 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 138119000583 ATP binding site [chemical binding]; other site 138119000584 putative Mg++ binding site [ion binding]; other site 138119000585 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 138119000586 nucleotide binding region [chemical binding]; other site 138119000587 TRCF domain; Region: TRCF; pfam03461 138119000588 SurA N-terminal domain; Region: SurA_N_3; cl07813 138119000589 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 138119000590 stage V sporulation protein T; Region: spore_V_T; TIGR02851 138119000591 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 138119000592 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 138119000593 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 138119000594 active site 138119000595 homodimer interface [polypeptide binding]; other site 138119000596 SAM binding site [chemical binding]; other site 138119000597 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 138119000598 homodimer interface [polypeptide binding]; other site 138119000599 metal binding site [ion binding]; metal-binding site 138119000600 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 138119000601 homodimer interface [polypeptide binding]; other site 138119000602 active site 138119000603 putative chemical substrate binding site [chemical binding]; other site 138119000604 metal binding site [ion binding]; metal-binding site 138119000605 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 138119000606 IHF - DNA interface [nucleotide binding]; other site 138119000607 IHF dimer interface [polypeptide binding]; other site 138119000608 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 138119000609 RNA binding surface [nucleotide binding]; other site 138119000610 YabP family; Region: YabP; cl06766 138119000611 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 138119000612 Septum formation initiator; Region: DivIC; cl17659 138119000613 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 138119000614 RNA binding site [nucleotide binding]; other site 138119000615 stage II sporulation protein E; Region: spore_II_E; TIGR02865 138119000616 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 138119000617 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 138119000618 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 138119000619 Ligand Binding Site [chemical binding]; other site 138119000620 TilS substrate C-terminal domain; Region: TilS_C; smart00977 138119000621 FtsH Extracellular; Region: FtsH_ext; pfam06480 138119000622 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 138119000623 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 138119000624 Walker A motif; other site 138119000625 ATP binding site [chemical binding]; other site 138119000626 Walker B motif; other site 138119000627 arginine finger; other site 138119000628 Peptidase family M41; Region: Peptidase_M41; pfam01434 138119000629 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 138119000630 active site 138119000631 multimer interface [polypeptide binding]; other site 138119000632 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 138119000633 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 138119000634 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 138119000635 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 138119000636 Potassium binding sites [ion binding]; other site 138119000637 Cesium cation binding sites [ion binding]; other site 138119000638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 138119000639 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 138119000640 dihydropteroate synthase; Region: DHPS; TIGR01496 138119000641 substrate binding pocket [chemical binding]; other site 138119000642 dimer interface [polypeptide binding]; other site 138119000643 inhibitor binding site; inhibition site 138119000644 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 138119000645 homooctamer interface [polypeptide binding]; other site 138119000646 active site 138119000647 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 138119000648 catalytic center binding site [active] 138119000649 ATP binding site [chemical binding]; other site 138119000650 Rossmann-like domain; Region: Rossmann-like; pfam10727 138119000651 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 138119000652 pantoate--beta-alanine ligase; Region: panC; TIGR00018 138119000653 Pantoate-beta-alanine ligase; Region: PanC; cd00560 138119000654 active site 138119000655 ATP-binding site [chemical binding]; other site 138119000656 pantoate-binding site; other site 138119000657 HXXH motif; other site 138119000658 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 138119000659 tetramerization interface [polypeptide binding]; other site 138119000660 active site 138119000661 L-aspartate oxidase; Provisional; Region: PRK06175 138119000662 L-aspartate oxidase; Provisional; Region: PRK07395 138119000663 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 138119000664 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 138119000665 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 138119000666 dimerization interface [polypeptide binding]; other site 138119000667 active site 138119000668 Biotin operon repressor [Transcription]; Region: BirA; COG1654 138119000669 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 138119000670 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 138119000671 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 138119000672 pantothenate kinase; Reviewed; Region: PRK13318 138119000673 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 138119000674 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 138119000675 FMN binding site [chemical binding]; other site 138119000676 active site 138119000677 catalytic residues [active] 138119000678 substrate binding site [chemical binding]; other site 138119000679 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 138119000680 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 138119000681 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 138119000682 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 138119000683 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 138119000684 dimer interface [polypeptide binding]; other site 138119000685 putative anticodon binding site; other site 138119000686 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 138119000687 motif 1; other site 138119000688 active site 138119000689 motif 2; other site 138119000690 motif 3; other site 138119000691 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119000692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119000693 dimer interface [polypeptide binding]; other site 138119000694 putative CheW interface [polypeptide binding]; other site 138119000695 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 138119000696 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 138119000697 acyl-activating enzyme (AAE) consensus motif; other site 138119000698 AMP binding site [chemical binding]; other site 138119000699 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 138119000700 Phosphopantetheine attachment site; Region: PP-binding; cl09936 138119000701 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 138119000702 DltD N-terminal region; Region: DltD_N; pfam04915 138119000703 DltD central region; Region: DltD_M; pfam04918 138119000704 DltD C-terminal region; Region: DltD_C; pfam04914 138119000705 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119000706 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119000707 transmembrane helices; other site 138119000708 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 138119000709 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 138119000710 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 138119000711 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 138119000712 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 138119000713 iron-sulfur cluster [ion binding]; other site 138119000714 [2Fe-2S] cluster binding site [ion binding]; other site 138119000715 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 138119000716 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 138119000717 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 138119000718 PhoU domain; Region: PhoU; pfam01895 138119000719 PhoU domain; Region: PhoU; pfam01895 138119000720 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 138119000721 active site 138119000722 DNA binding site [nucleotide binding] 138119000723 Int/Topo IB signature motif; other site 138119000724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119000725 Zn2+ binding site [ion binding]; other site 138119000726 Mg2+ binding site [ion binding]; other site 138119000727 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 138119000728 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 138119000729 DXD motif; other site 138119000730 agmatinase; Region: agmatinase; TIGR01230 138119000731 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 138119000732 putative active site [active] 138119000733 Mn binding site [ion binding]; other site 138119000734 DNA adenine methylase (dam); Region: dam; TIGR00571 138119000735 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 138119000736 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 138119000737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119000738 catalytic residue [active] 138119000739 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 138119000740 spermidine synthase; Provisional; Region: PRK00811 138119000741 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 138119000742 S-adenosylmethionine binding site [chemical binding]; other site 138119000743 Hemerythrin; Region: Hemerythrin; cd12107 138119000744 Fe binding site [ion binding]; other site 138119000745 YtxC-like family; Region: YtxC; pfam08812 138119000746 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 138119000747 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 138119000748 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 138119000749 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 138119000750 active site 138119000751 dimer interface [polypeptide binding]; other site 138119000752 motif 1; other site 138119000753 motif 2; other site 138119000754 motif 3; other site 138119000755 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 138119000756 anticodon binding site; other site 138119000757 Predicted membrane protein [Function unknown]; Region: COG2510 138119000758 Predicted membrane protein [Function unknown]; Region: COG2510 138119000759 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 138119000760 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 138119000761 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 138119000762 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119000763 PYR/PP interface [polypeptide binding]; other site 138119000764 dimer interface [polypeptide binding]; other site 138119000765 TPP binding site [chemical binding]; other site 138119000766 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119000767 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 138119000768 TPP-binding site [chemical binding]; other site 138119000769 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 138119000770 putative catalytic cysteine [active] 138119000771 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 138119000772 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 138119000773 CoA-ligase; Region: Ligase_CoA; pfam00549 138119000774 CoA-ligase; Region: Ligase_CoA; pfam00549 138119000775 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119000776 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 138119000777 transmembrane helices; other site 138119000778 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119000779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119000780 DNA-binding site [nucleotide binding]; DNA binding site 138119000781 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 138119000782 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 138119000783 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119000784 B12 binding site [chemical binding]; other site 138119000785 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 138119000786 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 138119000787 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 138119000788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119000789 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 138119000790 ATP binding site [chemical binding]; other site 138119000791 Mg2+ binding site [ion binding]; other site 138119000792 G-X-G motif; other site 138119000793 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 138119000794 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 138119000795 active site 138119000796 phosphorylation site [posttranslational modification] 138119000797 intermolecular recognition site; other site 138119000798 dimerization interface [polypeptide binding]; other site 138119000799 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 138119000800 Walker A motif; other site 138119000801 ATP binding site [chemical binding]; other site 138119000802 Walker B motif; other site 138119000803 arginine finger; other site 138119000804 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119000805 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119000806 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 138119000807 FtsX-like permease family; Region: FtsX; pfam02687 138119000808 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119000809 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119000810 Walker A/P-loop; other site 138119000811 ATP binding site [chemical binding]; other site 138119000812 Q-loop/lid; other site 138119000813 ABC transporter signature motif; other site 138119000814 Walker B; other site 138119000815 D-loop; other site 138119000816 H-loop/switch region; other site 138119000817 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 138119000818 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 138119000819 iron-sulfur cluster [ion binding]; other site 138119000820 [2Fe-2S] cluster binding site [ion binding]; other site 138119000821 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 138119000822 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 138119000823 interchain domain interface [polypeptide binding]; other site 138119000824 intrachain domain interface; other site 138119000825 heme bH binding site [chemical binding]; other site 138119000826 Qi binding site; other site 138119000827 heme bL binding site [chemical binding]; other site 138119000828 Qo binding site; other site 138119000829 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 138119000830 intrachain domain interface; other site 138119000831 Qi binding site; other site 138119000832 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 138119000833 Qo binding site; other site 138119000834 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 138119000835 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 138119000836 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 138119000837 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 138119000838 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 138119000839 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 138119000840 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 138119000841 NosL; Region: NosL; cl01769 138119000842 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 138119000843 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119000844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119000845 Walker A/P-loop; other site 138119000846 ATP binding site [chemical binding]; other site 138119000847 Q-loop/lid; other site 138119000848 ABC transporter signature motif; other site 138119000849 Walker B; other site 138119000850 D-loop; other site 138119000851 H-loop/switch region; other site 138119000852 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 138119000853 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 138119000854 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 138119000855 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 138119000856 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 138119000857 23S rRNA binding site [nucleotide binding]; other site 138119000858 L21 binding site [polypeptide binding]; other site 138119000859 L13 binding site [polypeptide binding]; other site 138119000860 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 138119000861 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 138119000862 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 138119000863 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 138119000864 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 138119000865 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 138119000866 dimer interface [polypeptide binding]; other site 138119000867 motif 1; other site 138119000868 active site 138119000869 motif 2; other site 138119000870 motif 3; other site 138119000871 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 138119000872 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 138119000873 putative tRNA-binding site [nucleotide binding]; other site 138119000874 B3/4 domain; Region: B3_4; pfam03483 138119000875 tRNA synthetase B5 domain; Region: B5; smart00874 138119000876 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 138119000877 dimer interface [polypeptide binding]; other site 138119000878 motif 1; other site 138119000879 motif 3; other site 138119000880 motif 2; other site 138119000881 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 138119000882 Cell division protein ZapA; Region: ZapA; cl01146 138119000883 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 138119000884 tricarballylate dehydrogenase; Validated; Region: PRK08274 138119000885 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119000886 DDE superfamily endonuclease; Region: DDE_5; cl17874 138119000887 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119000888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119000889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119000890 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119000891 dimerization interface [polypeptide binding]; other site 138119000892 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 138119000893 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119000894 DNA binding residues [nucleotide binding] 138119000895 drug binding residues [chemical binding]; other site 138119000896 dimer interface [polypeptide binding]; other site 138119000897 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 138119000898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119000899 putative substrate translocation pore; other site 138119000900 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 138119000901 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 138119000902 Peptidase family U32; Region: Peptidase_U32; pfam01136 138119000903 Collagenase; Region: DUF3656; pfam12392 138119000904 Peptidase family U32; Region: Peptidase_U32; pfam01136 138119000905 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 138119000906 MutS domain III; Region: MutS_III; pfam05192 138119000907 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 138119000908 Walker A/P-loop; other site 138119000909 ATP binding site [chemical binding]; other site 138119000910 Q-loop/lid; other site 138119000911 ABC transporter signature motif; other site 138119000912 Walker B; other site 138119000913 D-loop; other site 138119000914 H-loop/switch region; other site 138119000915 Smr domain; Region: Smr; pfam01713 138119000916 tricarballylate dehydrogenase; Validated; Region: PRK08274 138119000917 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119000918 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 138119000919 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119000920 Walker A motif; other site 138119000921 ATP binding site [chemical binding]; other site 138119000922 Walker B motif; other site 138119000923 arginine finger; other site 138119000924 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119000925 Transglycosylase; Region: Transgly; pfam00912 138119000926 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 138119000927 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 138119000928 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 138119000929 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 138119000930 active site 138119000931 HIGH motif; other site 138119000932 dimer interface [polypeptide binding]; other site 138119000933 KMSKS motif; other site 138119000934 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 138119000935 RNA binding surface [nucleotide binding]; other site 138119000936 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 138119000937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119000938 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 138119000939 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 138119000940 siderophore binding site; other site 138119000941 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 138119000942 flagellar motor protein MotA; Validated; Region: PRK08124 138119000943 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 138119000944 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 138119000945 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 138119000946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 138119000947 ligand binding site [chemical binding]; other site 138119000948 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 138119000949 hypothetical protein; Validated; Region: PRK02101 138119000950 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 138119000951 Coenzyme A binding pocket [chemical binding]; other site 138119000952 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119000953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119000954 Coenzyme A binding pocket [chemical binding]; other site 138119000955 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 138119000956 catalytic residues [active] 138119000957 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119000958 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 138119000959 non-specific DNA binding site [nucleotide binding]; other site 138119000960 salt bridge; other site 138119000961 sequence-specific DNA binding site [nucleotide binding]; other site 138119000962 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 138119000963 DNA binding site [nucleotide binding] 138119000964 metal binding site [ion binding]; metal-binding site 138119000965 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119000966 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119000967 Zn2+ binding site [ion binding]; other site 138119000968 Mg2+ binding site [ion binding]; other site 138119000969 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 138119000970 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119000971 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119000972 Cysteine-rich domain; Region: CCG; pfam02754 138119000973 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 138119000974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119000975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119000976 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138119000977 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119000978 active site residue [active] 138119000979 4Fe-4S binding domain; Region: Fer4; cl02805 138119000980 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 138119000981 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 138119000982 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 138119000983 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 138119000984 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 138119000985 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119000986 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119000987 Cysteine-rich domain; Region: CCG; pfam02754 138119000988 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119000989 4Fe-4S binding domain; Region: Fer4_6; pfam12837 138119000990 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119000991 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 138119000992 DsrC like protein; Region: DsrC; pfam04358 138119000993 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 138119000994 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 138119000995 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 138119000996 catalytic triad [active] 138119000997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119000998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119000999 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 138119001000 putative dimerization interface [polypeptide binding]; other site 138119001001 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 138119001002 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 138119001003 putative active site [active] 138119001004 catalytic triad [active] 138119001005 putative dimer interface [polypeptide binding]; other site 138119001006 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 138119001007 ATP cone domain; Region: ATP-cone; pfam03477 138119001008 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 138119001009 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 138119001010 active site 138119001011 dimer interface [polypeptide binding]; other site 138119001012 effector binding site; other site 138119001013 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 138119001014 protein-splicing catalytic site; other site 138119001015 thioester formation/cholesterol transfer; other site 138119001016 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 138119001017 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 138119001018 TSCPD domain; Region: TSCPD; pfam12637 138119001019 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119001020 L-lactate permease; Region: Lactate_perm; cl00701 138119001021 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 138119001022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119001023 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 138119001024 dimer interface [polypeptide binding]; other site 138119001025 phosphorylation site [posttranslational modification] 138119001026 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 138119001027 ATP binding site [chemical binding]; other site 138119001028 Mg2+ binding site [ion binding]; other site 138119001029 G-X-G motif; other site 138119001030 Cytochrome c552; Region: Cytochrom_C552; pfam02335 138119001031 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119001032 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 138119001033 active site 138119001034 phosphorylation site [posttranslational modification] 138119001035 intermolecular recognition site; other site 138119001036 dimerization interface [polypeptide binding]; other site 138119001037 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 138119001038 DNA binding site [nucleotide binding] 138119001039 YopX protein; Region: YopX; pfam09643 138119001040 EamA-like transporter family; Region: EamA; pfam00892 138119001041 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119001042 EamA-like transporter family; Region: EamA; pfam00892 138119001043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119001044 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 138119001045 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 138119001046 Mg++ binding site [ion binding]; other site 138119001047 putative catalytic motif [active] 138119001048 substrate binding site [chemical binding]; other site 138119001049 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 138119001050 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 138119001051 putative substrate translocation pore; other site 138119001052 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 138119001053 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 138119001054 putative substrate translocation pore; other site 138119001055 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 138119001056 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 138119001057 [4Fe-4S] binding site [ion binding]; other site 138119001058 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001059 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001060 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001061 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 138119001062 molybdopterin cofactor binding site; other site 138119001063 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 138119001064 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 138119001065 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 138119001066 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 138119001067 GAF domain; Region: GAF; pfam01590 138119001068 PAS fold; Region: PAS; pfam00989 138119001069 PAS domain; Region: PAS; smart00091 138119001070 Histidine kinase; Region: HisKA_3; pfam07730 138119001071 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 138119001072 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 138119001073 ATP binding site [chemical binding]; other site 138119001074 Mg2+ binding site [ion binding]; other site 138119001075 G-X-G motif; other site 138119001076 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119001077 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 138119001078 active site 138119001079 phosphorylation site [posttranslational modification] 138119001080 intermolecular recognition site; other site 138119001081 dimerization interface [polypeptide binding]; other site 138119001082 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 138119001083 DNA binding residues [nucleotide binding] 138119001084 dimerization interface [polypeptide binding]; other site 138119001085 Predicted transcriptional regulators [Transcription]; Region: COG1725 138119001086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119001087 DNA-binding site [nucleotide binding]; DNA binding site 138119001088 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119001089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119001090 Walker A/P-loop; other site 138119001091 ATP binding site [chemical binding]; other site 138119001092 Q-loop/lid; other site 138119001093 ABC transporter signature motif; other site 138119001094 Walker B; other site 138119001095 D-loop; other site 138119001096 H-loop/switch region; other site 138119001097 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 138119001098 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 138119001099 Methyltransferase domain; Region: Methyltransf_25; pfam13649 138119001100 OxaA-like protein precursor; Provisional; Region: PRK02463 138119001101 Probable zinc-binding domain; Region: zf-trcl; pfam13451 138119001102 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 138119001103 Beta-lactamase; Region: Beta-lactamase; pfam00144 138119001104 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 138119001105 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 138119001106 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 138119001107 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119001108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119001109 dimer interface [polypeptide binding]; other site 138119001110 putative CheW interface [polypeptide binding]; other site 138119001111 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 138119001112 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 138119001113 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 138119001114 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119001115 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119001116 dimerization interface [polypeptide binding]; other site 138119001117 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 138119001118 dimer interface [polypeptide binding]; other site 138119001119 phosphorylation site [posttranslational modification] 138119001120 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 138119001121 ATP binding site [chemical binding]; other site 138119001122 Mg2+ binding site [ion binding]; other site 138119001123 G-X-G motif; other site 138119001124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119001125 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 138119001126 active site 138119001127 phosphorylation site [posttranslational modification] 138119001128 intermolecular recognition site; other site 138119001129 dimerization interface [polypeptide binding]; other site 138119001130 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 138119001131 DNA binding site [nucleotide binding] 138119001132 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119001133 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119001134 4Fe-4S binding domain; Region: Fer4; cl02805 138119001135 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119001136 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 138119001137 putative [Fe4-S4] binding site [ion binding]; other site 138119001138 putative molybdopterin cofactor binding site [chemical binding]; other site 138119001139 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119001140 putative molybdopterin cofactor binding site; other site 138119001141 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119001142 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 138119001143 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 138119001144 G1 box; other site 138119001145 GTP/Mg2+ binding site [chemical binding]; other site 138119001146 Switch I region; other site 138119001147 G2 box; other site 138119001148 G3 box; other site 138119001149 Switch II region; other site 138119001150 G4 box; other site 138119001151 G5 box; other site 138119001152 Nucleoside recognition; Region: Gate; pfam07670 138119001153 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 138119001154 Nucleoside recognition; Region: Gate; pfam07670 138119001155 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 138119001156 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 138119001157 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 138119001158 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 138119001159 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119001160 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119001161 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119001162 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119001163 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 138119001164 intersubunit interface [polypeptide binding]; other site 138119001165 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119001166 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 138119001167 ABC-ATPase subunit interface; other site 138119001168 dimer interface [polypeptide binding]; other site 138119001169 putative PBP binding regions; other site 138119001170 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119001171 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119001172 Walker A/P-loop; other site 138119001173 ATP binding site [chemical binding]; other site 138119001174 Q-loop/lid; other site 138119001175 ABC transporter signature motif; other site 138119001176 Walker B; other site 138119001177 D-loop; other site 138119001178 H-loop/switch region; other site 138119001179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119001180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119001181 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119001182 dimerization interface [polypeptide binding]; other site 138119001183 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 138119001184 reactive center loop; other site 138119001185 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119001186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119001187 DNA-binding site [nucleotide binding]; DNA binding site 138119001188 FCD domain; Region: FCD; pfam07729 138119001189 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 138119001190 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 138119001191 D-galactonate transporter; Region: 2A0114; TIGR00893 138119001192 putative substrate translocation pore; other site 138119001193 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 138119001194 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 138119001195 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 138119001196 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 138119001197 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 138119001198 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119001199 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 138119001200 ligand binding site [chemical binding]; other site 138119001201 flexible hinge region; other site 138119001202 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 138119001203 putative switch regulator; other site 138119001204 non-specific DNA interactions [nucleotide binding]; other site 138119001205 DNA binding site [nucleotide binding] 138119001206 sequence specific DNA binding site [nucleotide binding]; other site 138119001207 putative cAMP binding site [chemical binding]; other site 138119001208 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 138119001209 Predicted amidohydrolase [General function prediction only]; Region: COG0388 138119001210 putative active site [active] 138119001211 catalytic triad [active] 138119001212 putative dimer interface [polypeptide binding]; other site 138119001213 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119001214 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 138119001215 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119001216 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 138119001217 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 138119001218 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 138119001219 MarR family; Region: MarR; pfam01047 138119001220 MarR family; Region: MarR_2; cl17246 138119001221 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119001222 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119001223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119001224 Walker A/P-loop; other site 138119001225 ATP binding site [chemical binding]; other site 138119001226 Q-loop/lid; other site 138119001227 ABC transporter signature motif; other site 138119001228 Walker B; other site 138119001229 D-loop; other site 138119001230 H-loop/switch region; other site 138119001231 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119001232 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 138119001233 dimer interface [polypeptide binding]; other site 138119001234 conserved gate region; other site 138119001235 putative PBP binding loops; other site 138119001236 ABC-ATPase subunit interface; other site 138119001237 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119001238 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 138119001239 dimer interface [polypeptide binding]; other site 138119001240 conserved gate region; other site 138119001241 putative PBP binding loops; other site 138119001242 ABC-ATPase subunit interface; other site 138119001243 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119001244 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 138119001245 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 138119001246 putative homodimer interface [polypeptide binding]; other site 138119001247 putative homotetramer interface [polypeptide binding]; other site 138119001248 putative metal binding site [ion binding]; other site 138119001249 putative homodimer-homodimer interface [polypeptide binding]; other site 138119001250 putative allosteric switch controlling residues; other site 138119001251 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119001252 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 138119001253 putative metal binding site [ion binding]; other site 138119001254 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119001255 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 138119001256 ABC-ATPase subunit interface; other site 138119001257 dimer interface [polypeptide binding]; other site 138119001258 putative PBP binding regions; other site 138119001259 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119001260 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119001261 Walker A/P-loop; other site 138119001262 ATP binding site [chemical binding]; other site 138119001263 Q-loop/lid; other site 138119001264 ABC transporter signature motif; other site 138119001265 Walker B; other site 138119001266 D-loop; other site 138119001267 H-loop/switch region; other site 138119001268 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 138119001269 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 138119001270 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 138119001271 Putative motility protein; Region: YjfB_motility; pfam14070 138119001272 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 138119001273 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 138119001274 FeS/SAM binding site; other site 138119001275 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 138119001276 ATP cone domain; Region: ATP-cone; pfam03477 138119001277 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 138119001278 Class III ribonucleotide reductase; Region: RNR_III; cd01675 138119001279 active site 138119001280 Zn binding site [ion binding]; other site 138119001281 glycine loop; other site 138119001282 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 138119001283 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119001284 ATP-grasp domain; Region: ATP-grasp_4; cl17255 138119001285 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 138119001286 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119001287 ATP-grasp domain; Region: ATP-grasp_4; cl17255 138119001288 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 138119001289 IMP binding site; other site 138119001290 dimer interface [polypeptide binding]; other site 138119001291 partial ornithine binding site; other site 138119001292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119001293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119001294 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119001295 dimerization interface [polypeptide binding]; other site 138119001296 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 138119001297 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119001298 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119001299 transmembrane helices; other site 138119001300 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119001301 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119001302 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119001303 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 138119001304 catalytic residues [active] 138119001305 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 138119001306 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 138119001307 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119001308 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119001309 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 138119001310 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 138119001311 putative catalytic cysteine [active] 138119001312 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119001313 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 138119001314 Hexamer interface [polypeptide binding]; other site 138119001315 Putative hexagonal pore residue; other site 138119001316 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119001317 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 138119001318 Hexamer interface [polypeptide binding]; other site 138119001319 Putative hexagonal pore residue; other site 138119001320 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 138119001321 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 138119001322 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 138119001323 putative hexamer interface [polypeptide binding]; other site 138119001324 putative hexagonal pore; other site 138119001325 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 138119001326 putative hexamer interface [polypeptide binding]; other site 138119001327 putative hexagonal pore; other site 138119001328 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 138119001329 SLBB domain; Region: SLBB; pfam10531 138119001330 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 138119001331 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 138119001332 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 138119001333 Hexamer/Pentamer interface [polypeptide binding]; other site 138119001334 central pore; other site 138119001335 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 138119001336 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 138119001337 nucleotide binding site [chemical binding]; other site 138119001338 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119001339 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 138119001340 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119001341 PAS domain; Region: PAS_9; pfam13426 138119001342 putative active site [active] 138119001343 heme pocket [chemical binding]; other site 138119001344 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119001345 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 138119001346 Walker A motif; other site 138119001347 ATP binding site [chemical binding]; other site 138119001348 Walker B motif; other site 138119001349 arginine finger; other site 138119001350 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 138119001351 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 138119001352 dimer interface [polypeptide binding]; other site 138119001353 active site 138119001354 glycine loop; other site 138119001355 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 138119001356 4Fe-4S binding domain; Region: Fer4; cl02805 138119001357 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119001358 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 138119001359 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 138119001360 DctM-like transporters; Region: DctM; pfam06808 138119001361 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 138119001362 DNA polymerase IV; Reviewed; Region: PRK03103 138119001363 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 138119001364 active site 138119001365 DNA binding site [nucleotide binding] 138119001366 Nitroreductase-like family 3. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_3; cd02139 138119001367 putative FMN binding site [chemical binding]; other site 138119001368 Protein of unknown function DUF45; Region: DUF45; pfam01863 138119001369 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 138119001370 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 138119001371 Uncharacterized conserved protein [Function unknown]; Region: COG1434 138119001372 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 138119001373 putative active site [active] 138119001374 Transglycosylase; Region: Transgly; pfam00912 138119001375 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 138119001376 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 138119001377 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 138119001378 oligomerization interface [polypeptide binding]; other site 138119001379 active site 138119001380 metal binding site [ion binding]; metal-binding site 138119001381 RNHCP domain; Region: RNHCP; pfam12647 138119001382 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 138119001383 nudix motif; other site 138119001384 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 138119001385 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 138119001386 putative substrate translocation pore; other site 138119001387 Rubrerythrin [Energy production and conversion]; Region: COG1592 138119001388 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 138119001389 binuclear metal center [ion binding]; other site 138119001390 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 138119001391 iron binding site [ion binding]; other site 138119001392 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 138119001393 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119001394 putative substrate translocation pore; other site 138119001395 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 138119001396 Ligand Binding Site [chemical binding]; other site 138119001397 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 138119001398 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 138119001399 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 138119001400 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 138119001401 ADP binding site [chemical binding]; other site 138119001402 phosphagen binding site; other site 138119001403 substrate specificity loop; other site 138119001404 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 138119001405 Clp amino terminal domain; Region: Clp_N; pfam02861 138119001406 Clp amino terminal domain; Region: Clp_N; pfam02861 138119001407 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 138119001408 Walker A motif; other site 138119001409 ATP binding site [chemical binding]; other site 138119001410 Walker B motif; other site 138119001411 arginine finger; other site 138119001412 UvrB/uvrC motif; Region: UVR; pfam02151 138119001413 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 138119001414 Walker A motif; other site 138119001415 ATP binding site [chemical binding]; other site 138119001416 Walker B motif; other site 138119001417 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 138119001418 DNA repair protein RadA; Provisional; Region: PRK11823 138119001419 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 138119001420 Walker A motif/ATP binding site; other site 138119001421 ATP binding site [chemical binding]; other site 138119001422 Walker B motif; other site 138119001423 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 138119001424 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 138119001425 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 138119001426 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 138119001427 putative active site [active] 138119001428 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 138119001429 substrate binding site; other site 138119001430 dimer interface; other site 138119001431 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 138119001432 homotrimer interaction site [polypeptide binding]; other site 138119001433 zinc binding site [ion binding]; other site 138119001434 CDP-binding sites; other site 138119001435 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 138119001436 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 138119001437 active site 138119001438 HIGH motif; other site 138119001439 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 138119001440 active site 138119001441 KMSKS motif; other site 138119001442 serine O-acetyltransferase; Region: cysE; TIGR01172 138119001443 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 138119001444 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 138119001445 trimer interface [polypeptide binding]; other site 138119001446 active site 138119001447 substrate binding site [chemical binding]; other site 138119001448 CoA binding site [chemical binding]; other site 138119001449 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 138119001450 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 138119001451 active site 138119001452 HIGH motif; other site 138119001453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 138119001454 KMSKS motif; other site 138119001455 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 138119001456 tRNA binding surface [nucleotide binding]; other site 138119001457 anticodon binding site; other site 138119001458 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 138119001459 active site 138119001460 metal binding site [ion binding]; metal-binding site 138119001461 dimerization interface [polypeptide binding]; other site 138119001462 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 138119001463 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 138119001464 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 138119001465 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 138119001466 RNA polymerase factor sigma-70; Validated; Region: PRK08295 138119001467 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119001468 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 138119001469 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 138119001470 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 138119001471 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 138119001472 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 138119001473 putative homodimer interface [polypeptide binding]; other site 138119001474 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 138119001475 heterodimer interface [polypeptide binding]; other site 138119001476 homodimer interface [polypeptide binding]; other site 138119001477 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 138119001478 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 138119001479 23S rRNA interface [nucleotide binding]; other site 138119001480 L7/L12 interface [polypeptide binding]; other site 138119001481 putative thiostrepton binding site; other site 138119001482 L25 interface [polypeptide binding]; other site 138119001483 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 138119001484 mRNA/rRNA interface [nucleotide binding]; other site 138119001485 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 138119001486 23S rRNA interface [nucleotide binding]; other site 138119001487 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 138119001488 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 138119001489 peripheral dimer interface [polypeptide binding]; other site 138119001490 core dimer interface [polypeptide binding]; other site 138119001491 L10 interface [polypeptide binding]; other site 138119001492 L11 interface [polypeptide binding]; other site 138119001493 putative EF-Tu interaction site [polypeptide binding]; other site 138119001494 putative EF-G interaction site [polypeptide binding]; other site 138119001495 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 138119001496 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 138119001497 active site 138119001498 phosphorylation site [posttranslational modification] 138119001499 intermolecular recognition site; other site 138119001500 dimerization interface [polypeptide binding]; other site 138119001501 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 138119001502 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119001503 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 138119001504 phosphorylation site [posttranslational modification] 138119001505 dimer interface [polypeptide binding]; other site 138119001506 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 138119001507 ATP binding site [chemical binding]; other site 138119001508 Mg2+ binding site [ion binding]; other site 138119001509 G-X-G motif; other site 138119001510 Response regulator receiver domain; Region: Response_reg; pfam00072 138119001511 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 138119001512 active site 138119001513 phosphorylation site [posttranslational modification] 138119001514 intermolecular recognition site; other site 138119001515 dimerization interface [polypeptide binding]; other site 138119001516 Histidine kinase; Region: His_kinase; pfam06580 138119001517 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 138119001518 ATP binding site [chemical binding]; other site 138119001519 Mg2+ binding site [ion binding]; other site 138119001520 G-X-G motif; other site 138119001521 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119001522 dimerization interface [polypeptide binding]; other site 138119001523 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119001524 dimer interface [polypeptide binding]; other site 138119001525 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 138119001526 putative CheW interface [polypeptide binding]; other site 138119001527 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 138119001528 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119001529 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 138119001530 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 138119001531 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 138119001532 RPB10 interaction site [polypeptide binding]; other site 138119001533 RPB1 interaction site [polypeptide binding]; other site 138119001534 RPB11 interaction site [polypeptide binding]; other site 138119001535 RPB3 interaction site [polypeptide binding]; other site 138119001536 RPB12 interaction site [polypeptide binding]; other site 138119001537 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 138119001538 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 138119001539 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 138119001540 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 138119001541 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 138119001542 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 138119001543 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 138119001544 G-loop; other site 138119001545 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 138119001546 DNA binding site [nucleotide binding] 138119001547 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 138119001548 putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602 138119001549 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 138119001550 S17 interaction site [polypeptide binding]; other site 138119001551 S8 interaction site; other site 138119001552 16S rRNA interaction site [nucleotide binding]; other site 138119001553 streptomycin interaction site [chemical binding]; other site 138119001554 23S rRNA interaction site [nucleotide binding]; other site 138119001555 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 138119001556 30S ribosomal protein S7; Validated; Region: PRK05302 138119001557 elongation factor G; Reviewed; Region: PRK00007 138119001558 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 138119001559 G1 box; other site 138119001560 putative GEF interaction site [polypeptide binding]; other site 138119001561 GTP/Mg2+ binding site [chemical binding]; other site 138119001562 Switch I region; other site 138119001563 G2 box; other site 138119001564 G3 box; other site 138119001565 Switch II region; other site 138119001566 G4 box; other site 138119001567 G5 box; other site 138119001568 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 138119001569 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 138119001570 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 138119001571 elongation factor Tu; Reviewed; Region: PRK00049 138119001572 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 138119001573 G1 box; other site 138119001574 GEF interaction site [polypeptide binding]; other site 138119001575 GTP/Mg2+ binding site [chemical binding]; other site 138119001576 Switch I region; other site 138119001577 G2 box; other site 138119001578 G3 box; other site 138119001579 Switch II region; other site 138119001580 G4 box; other site 138119001581 G5 box; other site 138119001582 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 138119001583 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 138119001584 Antibiotic Binding Site [chemical binding]; other site 138119001585 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 138119001586 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 138119001587 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 138119001588 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 138119001589 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 138119001590 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 138119001591 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 138119001592 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 138119001593 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 138119001594 putative translocon binding site; other site 138119001595 protein-rRNA interface [nucleotide binding]; other site 138119001596 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 138119001597 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 138119001598 G-X-X-G motif; other site 138119001599 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 138119001600 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 138119001601 23S rRNA interface [nucleotide binding]; other site 138119001602 5S rRNA interface [nucleotide binding]; other site 138119001603 putative antibiotic binding site [chemical binding]; other site 138119001604 L25 interface [polypeptide binding]; other site 138119001605 L27 interface [polypeptide binding]; other site 138119001606 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 138119001607 23S rRNA interface [nucleotide binding]; other site 138119001608 putative translocon interaction site; other site 138119001609 signal recognition particle (SRP54) interaction site; other site 138119001610 L23 interface [polypeptide binding]; other site 138119001611 trigger factor interaction site; other site 138119001612 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 138119001613 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 138119001614 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 138119001615 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 138119001616 RNA binding site [nucleotide binding]; other site 138119001617 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 138119001618 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 138119001619 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 138119001620 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 138119001621 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 138119001622 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 138119001623 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 138119001624 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 138119001625 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 138119001626 5S rRNA interface [nucleotide binding]; other site 138119001627 L27 interface [polypeptide binding]; other site 138119001628 23S rRNA interface [nucleotide binding]; other site 138119001629 L5 interface [polypeptide binding]; other site 138119001630 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 138119001631 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 138119001632 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 138119001633 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 138119001634 23S rRNA binding site [nucleotide binding]; other site 138119001635 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 138119001636 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 138119001637 SecY translocase; Region: SecY; pfam00344 138119001638 adenylate kinase; Reviewed; Region: adk; PRK00279 138119001639 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 138119001640 AMP-binding site [chemical binding]; other site 138119001641 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 138119001642 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 138119001643 active site 138119001644 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 138119001645 rRNA binding site [nucleotide binding]; other site 138119001646 predicted 30S ribosome binding site; other site 138119001647 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 138119001648 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 138119001649 30S ribosomal protein S13; Region: bact_S13; TIGR03631 138119001650 30S ribosomal protein S11; Validated; Region: PRK05309 138119001651 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 138119001652 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 138119001653 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 138119001654 RNA binding surface [nucleotide binding]; other site 138119001655 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 138119001656 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 138119001657 alphaNTD - beta interaction site [polypeptide binding]; other site 138119001658 alphaNTD homodimer interface [polypeptide binding]; other site 138119001659 alphaNTD - beta' interaction site [polypeptide binding]; other site 138119001660 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 138119001661 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 138119001662 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119001663 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119001664 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119001665 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 138119001666 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 138119001667 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119001668 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 138119001669 peptide binding site [polypeptide binding]; other site 138119001670 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119001671 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 138119001672 putative PBP binding loops; other site 138119001673 dimer interface [polypeptide binding]; other site 138119001674 ABC-ATPase subunit interface; other site 138119001675 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 138119001676 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 138119001677 dimer interface [polypeptide binding]; other site 138119001678 conserved gate region; other site 138119001679 putative PBP binding loops; other site 138119001680 ABC-ATPase subunit interface; other site 138119001681 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138119001682 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119001683 Walker A/P-loop; other site 138119001684 ATP binding site [chemical binding]; other site 138119001685 Q-loop/lid; other site 138119001686 ABC transporter signature motif; other site 138119001687 Walker B; other site 138119001688 D-loop; other site 138119001689 H-loop/switch region; other site 138119001690 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 138119001691 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 138119001692 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119001693 Walker A/P-loop; other site 138119001694 ATP binding site [chemical binding]; other site 138119001695 Q-loop/lid; other site 138119001696 ABC transporter signature motif; other site 138119001697 Walker B; other site 138119001698 D-loop; other site 138119001699 H-loop/switch region; other site 138119001700 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 138119001701 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119001702 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119001703 Zn2+ binding site [ion binding]; other site 138119001704 Mg2+ binding site [ion binding]; other site 138119001705 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 138119001706 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 138119001707 active site 138119001708 tricarballylate dehydrogenase; Validated; Region: PRK08274 138119001709 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119001710 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119001711 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 138119001712 Walker A motif; other site 138119001713 ATP binding site [chemical binding]; other site 138119001714 Walker B motif; other site 138119001715 arginine finger; other site 138119001716 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119001717 tricarballylate dehydrogenase; Validated; Region: PRK08274 138119001718 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119001719 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 138119001720 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 138119001721 putative substrate translocation pore; other site 138119001722 acetyl-CoA synthetase; Provisional; Region: PRK00174 138119001723 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 138119001724 active site 138119001725 CoA binding site [chemical binding]; other site 138119001726 acyl-activating enzyme (AAE) consensus motif; other site 138119001727 AMP binding site [chemical binding]; other site 138119001728 acetate binding site [chemical binding]; other site 138119001729 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 138119001730 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 138119001731 dimerization interface 3.5A [polypeptide binding]; other site 138119001732 active site 138119001733 chorismate binding enzyme; Region: Chorismate_bind; cl10555 138119001734 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 138119001735 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 138119001736 dimer interface [polypeptide binding]; other site 138119001737 tetramer interface [polypeptide binding]; other site 138119001738 PYR/PP interface [polypeptide binding]; other site 138119001739 TPP binding site [chemical binding]; other site 138119001740 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 138119001741 TPP-binding site; other site 138119001742 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 138119001743 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 138119001744 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 138119001745 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 138119001746 substrate binding site [chemical binding]; other site 138119001747 oxyanion hole (OAH) forming residues; other site 138119001748 trimer interface [polypeptide binding]; other site 138119001749 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 138119001750 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 138119001751 acyl-activating enzyme (AAE) consensus motif; other site 138119001752 putative AMP binding site [chemical binding]; other site 138119001753 putative active site [active] 138119001754 putative CoA binding site [chemical binding]; other site 138119001755 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 138119001756 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 138119001757 active site 138119001758 octamer interface [polypeptide binding]; other site 138119001759 peroxiredoxin; Region: AhpC; TIGR03137 138119001760 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 138119001761 dimer interface [polypeptide binding]; other site 138119001762 decamer (pentamer of dimers) interface [polypeptide binding]; other site 138119001763 catalytic triad [active] 138119001764 peroxidatic and resolving cysteines [active] 138119001765 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 138119001766 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 138119001767 catalytic residue [active] 138119001768 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 138119001769 catalytic residues [active] 138119001770 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119001771 putative [4Fe-4S] binding site [ion binding]; other site 138119001772 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119001773 putative molybdopterin cofactor binding site [chemical binding]; other site 138119001774 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119001775 molybdopterin cofactor binding site; other site 138119001776 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119001777 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 138119001778 putative [4Fe-4S] binding site [ion binding]; other site 138119001779 putative molybdopterin cofactor binding site [chemical binding]; other site 138119001780 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001781 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119001782 putative molybdopterin cofactor binding site; other site 138119001783 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119001784 4Fe-4S binding domain; Region: Fer4; pfam00037 138119001785 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119001786 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 138119001787 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119001788 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 138119001789 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119001790 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 138119001791 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119001792 Phage Tail Collar Domain; Region: Collar; pfam07484 138119001793 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 138119001794 sugar binding site [chemical binding]; other site 138119001795 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 138119001796 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 138119001797 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119001798 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119001799 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119001800 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119001801 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119001802 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001803 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 138119001804 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001805 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001806 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119001807 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119001808 FtsX-like permease family; Region: FtsX; pfam02687 138119001809 S-layer domain [Cell envelope biogenesis, outer membrane]; Region: COG1361 138119001810 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119001811 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119001812 Walker A/P-loop; other site 138119001813 ATP binding site [chemical binding]; other site 138119001814 Q-loop/lid; other site 138119001815 ABC transporter signature motif; other site 138119001816 Walker B; other site 138119001817 D-loop; other site 138119001818 H-loop/switch region; other site 138119001819 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 138119001820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119001821 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 138119001822 dimer interface [polypeptide binding]; other site 138119001823 phosphorylation site [posttranslational modification] 138119001824 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 138119001825 ATP binding site [chemical binding]; other site 138119001826 Mg2+ binding site [ion binding]; other site 138119001827 G-X-G motif; other site 138119001828 Response regulator receiver domain; Region: Response_reg; pfam00072 138119001829 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 138119001830 active site 138119001831 phosphorylation site [posttranslational modification] 138119001832 intermolecular recognition site; other site 138119001833 dimerization interface [polypeptide binding]; other site 138119001834 Histidine kinase; Region: His_kinase; pfam06580 138119001835 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 138119001836 Mg2+ binding site [ion binding]; other site 138119001837 G-X-G motif; other site 138119001838 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 138119001839 Histidine kinase; Region: His_kinase; pfam06580 138119001840 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 138119001841 ATP binding site [chemical binding]; other site 138119001842 Mg2+ binding site [ion binding]; other site 138119001843 G-X-G motif; other site 138119001844 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 138119001845 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 138119001846 active site 138119001847 phosphorylation site [posttranslational modification] 138119001848 intermolecular recognition site; other site 138119001849 dimerization interface [polypeptide binding]; other site 138119001850 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 138119001851 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 138119001852 binding surface 138119001853 TPR motif; other site 138119001854 Immunoglobulin I-set domain; Region: I-set; pfam07679 138119001855 Immunoglobulin domain; Region: Ig; cd00096 138119001856 Immunoglobulin I-set domain; Region: I-set; pfam07679 138119001857 Immunoglobulin domain; Region: Ig; cd00096 138119001858 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 138119001859 Interdomain contacts; other site 138119001860 Cytokine receptor motif; other site 138119001861 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001862 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 138119001863 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001864 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119001865 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 138119001866 Response regulator receiver domain; Region: Response_reg; pfam00072 138119001867 active site 138119001868 phosphorylation site [posttranslational modification] 138119001869 intermolecular recognition site; other site 138119001870 dimerization interface [polypeptide binding]; other site 138119001871 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 138119001872 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 138119001873 zinc binding site [ion binding]; other site 138119001874 putative ligand binding site [chemical binding]; other site 138119001875 HAMP domain; Region: HAMP; pfam00672 138119001876 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 138119001877 dimer interface [polypeptide binding]; other site 138119001878 phosphorylation site [posttranslational modification] 138119001879 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 138119001880 ATP binding site [chemical binding]; other site 138119001881 Mg2+ binding site [ion binding]; other site 138119001882 G-X-G motif; other site 138119001883 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 138119001884 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 138119001885 active site 138119001886 phosphorylation site [posttranslational modification] 138119001887 intermolecular recognition site; other site 138119001888 dimerization interface [polypeptide binding]; other site 138119001889 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 138119001890 Walker A motif; other site 138119001891 ATP binding site [chemical binding]; other site 138119001892 Walker B motif; other site 138119001893 arginine finger; other site 138119001894 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119001895 tetrathionate reductase subunit A; Provisional; Region: PRK14991 138119001896 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001897 molybdopterin cofactor binding site; other site 138119001898 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119001899 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119001900 molybdopterin cofactor binding site; other site 138119001901 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119001902 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119001903 4Fe-4S binding domain; Region: Fer4; pfam00037 138119001904 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 138119001905 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 138119001906 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119001907 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 138119001908 non-specific DNA binding site [nucleotide binding]; other site 138119001909 salt bridge; other site 138119001910 sequence-specific DNA binding site [nucleotide binding]; other site 138119001911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119001912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119001913 metal binding site [ion binding]; metal-binding site 138119001914 active site 138119001915 I-site; other site 138119001916 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119001917 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119001918 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 138119001919 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119001920 Walker A/P-loop; other site 138119001921 ATP binding site [chemical binding]; other site 138119001922 Q-loop/lid; other site 138119001923 ABC transporter signature motif; other site 138119001924 Walker B; other site 138119001925 D-loop; other site 138119001926 H-loop/switch region; other site 138119001927 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 138119001928 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119001929 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119001930 MarR family; Region: MarR_2; pfam12802 138119001931 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119001932 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 138119001933 Response regulator receiver domain; Region: Response_reg; pfam00072 138119001934 active site 138119001935 phosphorylation site [posttranslational modification] 138119001936 intermolecular recognition site; other site 138119001937 dimerization interface [polypeptide binding]; other site 138119001938 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119001939 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 138119001940 non-specific DNA binding site [nucleotide binding]; other site 138119001941 salt bridge; other site 138119001942 sequence-specific DNA binding site [nucleotide binding]; other site 138119001943 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 138119001944 putative alcohol dehydrogenase; Provisional; Region: PRK09860 138119001945 dimer interface [polypeptide binding]; other site 138119001946 active site 138119001947 metal binding site [ion binding]; metal-binding site 138119001948 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119001949 GAF domain; Region: GAF; pfam01590 138119001950 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119001951 putative active site [active] 138119001952 heme pocket [chemical binding]; other site 138119001953 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 138119001954 Walker A motif; other site 138119001955 ATP binding site [chemical binding]; other site 138119001956 Walker B motif; other site 138119001957 arginine finger; other site 138119001958 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119001959 Cache domain; Region: Cache_1; pfam02743 138119001960 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119001961 dimerization interface [polypeptide binding]; other site 138119001962 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119001963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119001964 dimer interface [polypeptide binding]; other site 138119001965 putative CheW interface [polypeptide binding]; other site 138119001966 Predicted transcriptional regulators [Transcription]; Region: COG1733 138119001967 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 138119001968 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 138119001969 Probable transposase; Region: OrfB_IS605; pfam01385 138119001970 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 138119001971 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 138119001972 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119001973 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 138119001974 active site 138119001975 dimerization interface [polypeptide binding]; other site 138119001976 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 138119001977 DNA binding site [nucleotide binding] 138119001978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119001979 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 138119001980 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 138119001981 ATP binding site [chemical binding]; other site 138119001982 Mg2+ binding site [ion binding]; other site 138119001983 G-X-G motif; other site 138119001984 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119001985 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119001986 Walker A/P-loop; other site 138119001987 ATP binding site [chemical binding]; other site 138119001988 Q-loop/lid; other site 138119001989 ABC transporter signature motif; other site 138119001990 Walker B; other site 138119001991 D-loop; other site 138119001992 H-loop/switch region; other site 138119001993 FtsX-like permease family; Region: FtsX; pfam02687 138119001994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119001995 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119001996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119001997 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 138119001998 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 138119001999 oligomer interface [polypeptide binding]; other site 138119002000 active site residues [active] 138119002001 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 138119002002 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119002003 putative substrate translocation pore; other site 138119002004 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 138119002005 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119002006 HAMP domain; Region: HAMP; pfam00672 138119002007 dimerization interface [polypeptide binding]; other site 138119002008 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119002009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119002010 dimer interface [polypeptide binding]; other site 138119002011 putative CheW interface [polypeptide binding]; other site 138119002012 MFS/sugar transport protein; Region: MFS_2; pfam13347 138119002013 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 138119002014 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 138119002015 Walker A motif; other site 138119002016 ATP binding site [chemical binding]; other site 138119002017 Walker B motif; other site 138119002018 arginine finger; other site 138119002019 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119002020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119002021 dimer interface [polypeptide binding]; other site 138119002022 putative CheW interface [polypeptide binding]; other site 138119002023 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 138119002024 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 138119002025 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 138119002026 The MopB_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR catalyzes the reduction of DMSO to dimethylsulfide, but its cellular...; Region: MopB_DMSOR-like; cd02751 138119002027 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 138119002028 molybdopterin cofactor binding site [chemical binding]; other site 138119002029 The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-like; cd02777 138119002030 molybdopterin cofactor binding site; other site 138119002031 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119002032 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119002033 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 138119002034 B12 binding site [chemical binding]; other site 138119002035 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119002036 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119002037 substrate binding pocket [chemical binding]; other site 138119002038 dimer interface [polypeptide binding]; other site 138119002039 inhibitor binding site; inhibition site 138119002040 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119002041 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119002042 putative [Fe4-S4] binding site [ion binding]; other site 138119002043 putative molybdopterin cofactor binding site [chemical binding]; other site 138119002044 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119002045 putative molybdopterin cofactor binding site; other site 138119002046 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 138119002047 active site 138119002048 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 138119002049 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 138119002050 active site 138119002051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 138119002052 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 138119002053 non-specific DNA binding site [nucleotide binding]; other site 138119002054 salt bridge; other site 138119002055 sequence-specific DNA binding site [nucleotide binding]; other site 138119002056 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 138119002057 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119002058 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119002059 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119002060 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119002061 putative [4Fe-4S] binding site [ion binding]; other site 138119002062 putative molybdopterin cofactor binding site [chemical binding]; other site 138119002063 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119002064 molybdopterin cofactor binding site; other site 138119002065 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119002066 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119002067 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 138119002068 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119002069 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119002070 putative [4Fe-4S] binding site [ion binding]; other site 138119002071 putative molybdopterin cofactor binding site [chemical binding]; other site 138119002072 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 138119002073 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119002074 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119002075 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 138119002076 homodecamer interface [polypeptide binding]; other site 138119002077 GTP cyclohydrolase I; Provisional; Region: PLN03044 138119002078 active site 138119002079 putative catalytic site residues [active] 138119002080 zinc binding site [ion binding]; other site 138119002081 GTP-CH-I/GFRP interaction surface; other site 138119002082 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 138119002083 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 138119002084 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 138119002085 Potassium binding sites [ion binding]; other site 138119002086 Cesium cation binding sites [ion binding]; other site 138119002087 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 138119002088 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 138119002089 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 138119002090 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 138119002091 homodimer interface [polypeptide binding]; other site 138119002092 NADP binding site [chemical binding]; other site 138119002093 substrate binding site [chemical binding]; other site 138119002094 MoxR-like ATPases [General function prediction only]; Region: COG0714 138119002095 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119002096 Walker A motif; other site 138119002097 ATP binding site [chemical binding]; other site 138119002098 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 138119002099 metal ion-dependent adhesion site (MIDAS); other site 138119002100 Domain of unknown function DUF21; Region: DUF21; pfam01595 138119002101 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 138119002102 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 138119002103 Transporter associated domain; Region: CorC_HlyC; pfam03471 138119002104 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 138119002105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119002106 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 138119002107 DNA binding residues [nucleotide binding] 138119002108 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 138119002109 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 138119002110 PAS domain; Region: PAS_10; pfam13596 138119002111 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119002112 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119002113 metal binding site [ion binding]; metal-binding site 138119002114 active site 138119002115 I-site; other site 138119002116 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 138119002117 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 138119002118 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 138119002119 active site 138119002120 DNA binding site [nucleotide binding] 138119002121 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 138119002122 DNA binding site [nucleotide binding] 138119002123 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 138119002124 nucleotide binding site [chemical binding]; other site 138119002125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002127 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002128 dimerization interface [polypeptide binding]; other site 138119002129 FMN-binding domain; Region: FMN_bind; pfam04205 138119002130 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119002131 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 138119002132 NAD binding site [chemical binding]; other site 138119002133 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119002134 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 138119002135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 138119002136 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119002137 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 138119002138 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 138119002139 1,3-propanediol dehydrogenase-like (PPD); Region: PPD-like; cd08181 138119002140 dimer interface [polypeptide binding]; other site 138119002141 active site 138119002142 metal binding site [ion binding]; metal-binding site 138119002143 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 138119002144 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 138119002145 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 138119002146 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 138119002147 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 138119002148 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119002149 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 138119002150 non-specific DNA binding site [nucleotide binding]; other site 138119002151 salt bridge; other site 138119002152 sequence-specific DNA binding site [nucleotide binding]; other site 138119002153 Fic/DOC family; Region: Fic; cl00960 138119002154 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119002155 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 138119002156 dimer interface [polypeptide binding]; other site 138119002157 active site 138119002158 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 138119002159 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 138119002160 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 138119002161 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 138119002162 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119002163 PAS domain; Region: PAS_9; pfam13426 138119002164 putative active site [active] 138119002165 heme pocket [chemical binding]; other site 138119002166 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 138119002167 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 138119002168 Walker A motif; other site 138119002169 ATP binding site [chemical binding]; other site 138119002170 Walker B motif; other site 138119002171 arginine finger; other site 138119002172 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119002173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119002174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119002175 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119002176 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119002177 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 138119002178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119002179 NAD(P) binding site [chemical binding]; other site 138119002180 active site 138119002181 putative acyltransferase; Provisional; Region: PRK05790 138119002182 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119002183 dimer interface [polypeptide binding]; other site 138119002184 active site 138119002185 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 138119002186 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 138119002187 substrate binding pocket [chemical binding]; other site 138119002188 catalytic triad [active] 138119002189 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119002190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119002191 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119002192 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119002193 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_9; cd08496 138119002194 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119002195 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 138119002196 dimer interface [polypeptide binding]; other site 138119002197 conserved gate region; other site 138119002198 putative PBP binding loops; other site 138119002199 ABC-ATPase subunit interface; other site 138119002200 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119002201 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 138119002202 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 138119002203 dimer interface [polypeptide binding]; other site 138119002204 conserved gate region; other site 138119002205 putative PBP binding loops; other site 138119002206 ABC-ATPase subunit interface; other site 138119002207 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138119002208 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119002209 Walker A/P-loop; other site 138119002210 ATP binding site [chemical binding]; other site 138119002211 Q-loop/lid; other site 138119002212 ABC transporter signature motif; other site 138119002213 Walker B; other site 138119002214 D-loop; other site 138119002215 H-loop/switch region; other site 138119002216 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 138119002217 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 138119002218 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119002219 Walker A/P-loop; other site 138119002220 ATP binding site [chemical binding]; other site 138119002221 Q-loop/lid; other site 138119002222 ABC transporter signature motif; other site 138119002223 Walker B; other site 138119002224 D-loop; other site 138119002225 H-loop/switch region; other site 138119002226 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 138119002227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002229 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002230 dimerization interface [polypeptide binding]; other site 138119002231 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119002232 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119002233 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 138119002234 DctM-like transporters; Region: DctM; pfam06808 138119002235 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 138119002236 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 138119002237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002239 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002240 dimerization interface [polypeptide binding]; other site 138119002241 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 138119002242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 138119002243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 138119002244 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119002245 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119002246 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119002247 dimer interface [polypeptide binding]; other site 138119002248 putative CheW interface [polypeptide binding]; other site 138119002249 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119002250 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119002251 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 138119002252 catalytic residues [active] 138119002253 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 138119002254 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 138119002255 TIGR02677 family protein; Region: TIGR02677 138119002256 Protein of unknown function (DUF2398); Region: DUF2398; pfam09661 138119002257 TIGR02680 family protein; Region: TIGR02680 138119002258 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 138119002259 Protein of unknown function N-terminus (DUF3323); Region: DUF3323; pfam11796 138119002260 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 138119002261 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 138119002262 helix-hairpin-helix signature motif; other site 138119002263 substrate binding pocket [chemical binding]; other site 138119002264 active site 138119002265 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 138119002266 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 138119002267 ATP binding site [chemical binding]; other site 138119002268 substrate binding site [chemical binding]; other site 138119002269 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 138119002270 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 138119002271 Ligand Binding Site [chemical binding]; other site 138119002272 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 138119002273 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 138119002274 AAA ATPase domain; Region: AAA_16; pfam13191 138119002275 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 138119002276 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 138119002277 ATP binding site [chemical binding]; other site 138119002278 putative Mg++ binding site [ion binding]; other site 138119002279 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 138119002280 nucleotide binding region [chemical binding]; other site 138119002281 ATP-binding site [chemical binding]; other site 138119002282 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 138119002283 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 138119002284 ATP binding site [chemical binding]; other site 138119002285 putative Mg++ binding site [ion binding]; other site 138119002286 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 138119002287 nucleotide binding region [chemical binding]; other site 138119002288 ATP-binding site [chemical binding]; other site 138119002289 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 138119002290 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 138119002291 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 138119002292 ATP binding site [chemical binding]; other site 138119002293 putative Mg++ binding site [ion binding]; other site 138119002294 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 138119002295 nucleotide binding region [chemical binding]; other site 138119002296 ATP-binding site [chemical binding]; other site 138119002297 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 138119002298 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 138119002299 Methyltransferase domain; Region: Methyltransf_26; pfam13659 138119002300 Fic family protein [Function unknown]; Region: COG3177 138119002301 Fic/DOC family; Region: Fic; pfam02661 138119002302 TIGR02687 family protein; Region: TIGR02687 138119002303 PglZ domain; Region: PglZ; pfam08665 138119002304 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 138119002305 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 138119002306 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 138119002307 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 138119002308 putative active site [active] 138119002309 putative NTP binding site [chemical binding]; other site 138119002310 putative nucleic acid binding site [nucleotide binding]; other site 138119002311 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 138119002312 active site 138119002313 substrate binding site [chemical binding]; other site 138119002314 catalytic site [active] 138119002315 DEAD-like helicases superfamily; Region: DEXDc; smart00487 138119002316 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 138119002317 ATP binding site [chemical binding]; other site 138119002318 putative Mg++ binding site [ion binding]; other site 138119002319 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 138119002320 nucleotide binding region [chemical binding]; other site 138119002321 ATP-binding site [chemical binding]; other site 138119002322 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 138119002323 Part of AAA domain; Region: AAA_19; pfam13245 138119002324 AAA domain; Region: AAA_30; pfam13604 138119002325 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 138119002326 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 138119002327 Family description; Region: UvrD_C_2; pfam13538 138119002328 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 138119002329 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 138119002330 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119002331 Walker A motif; other site 138119002332 ATP binding site [chemical binding]; other site 138119002333 Walker B motif; other site 138119002334 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 138119002335 Protein of unknown function (DUF524); Region: DUF524; pfam04411 138119002336 HD domain; Region: HD_4; pfam13328 138119002337 AAA domain; Region: AAA_21; pfam13304 138119002338 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 138119002339 active site 138119002340 putative transposase OrfB; Reviewed; Region: PHA02517 138119002341 HTH-like domain; Region: HTH_21; pfam13276 138119002342 Integrase core domain; Region: rve; pfam00665 138119002343 Integrase core domain; Region: rve_3; pfam13683 138119002344 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119002345 Accessory gene regulator B; Region: AgrB; pfam04647 138119002346 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 138119002347 active site 138119002348 NTP binding site [chemical binding]; other site 138119002349 metal binding triad [ion binding]; metal-binding site 138119002350 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 138119002351 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 138119002352 ATP binding site [chemical binding]; other site 138119002353 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 138119002354 sequence-specific DNA binding site [nucleotide binding]; other site 138119002355 salt bridge; other site 138119002356 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 138119002357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119002358 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119002359 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 138119002360 Spore germination protein; Region: Spore_permease; cl17796 138119002361 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119002362 Virulence protein [General function prediction only]; Region: COG3943 138119002363 SEC-C motif; Region: SEC-C; pfam02810 138119002364 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 138119002365 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 138119002366 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 138119002367 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 138119002368 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 138119002369 DEAD-like helicases superfamily; Region: DEXDc; smart00487 138119002370 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 138119002371 ATP binding site [chemical binding]; other site 138119002372 putative Mg++ binding site [ion binding]; other site 138119002373 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 138119002374 nucleotide binding region [chemical binding]; other site 138119002375 ATP-binding site [chemical binding]; other site 138119002376 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 138119002377 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119002378 active site 138119002379 DNA protecting protein DprA; Region: dprA; TIGR00732 138119002380 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 138119002381 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119002382 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119002383 Domain of unknown function (DUF3841); Region: DUF3841; pfam12952 138119002384 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 138119002385 active site 138119002386 substrate binding site [chemical binding]; other site 138119002387 catalytic site [active] 138119002388 DEAD-like helicases superfamily; Region: DEXDc; smart00487 138119002389 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 138119002390 ATP binding site [chemical binding]; other site 138119002391 putative Mg++ binding site [ion binding]; other site 138119002392 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 138119002393 nucleotide binding region [chemical binding]; other site 138119002394 ATP-binding site [chemical binding]; other site 138119002395 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 138119002396 Part of AAA domain; Region: AAA_19; pfam13245 138119002397 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 138119002398 Family description; Region: UvrD_C_2; pfam13538 138119002399 RES domain; Region: RES; smart00953 138119002400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002402 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002403 dimerization interface [polypeptide binding]; other site 138119002404 FMN-binding domain; Region: FMN_bind; pfam04205 138119002405 FAD binding domain; Region: FAD_binding_2; pfam00890 138119002406 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119002407 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 138119002408 Peptidase family U32; Region: Peptidase_U32; pfam01136 138119002409 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 138119002410 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 138119002411 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 138119002412 23S rRNA interface [nucleotide binding]; other site 138119002413 L3 interface [polypeptide binding]; other site 138119002414 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 138119002415 EamA-like transporter family; Region: EamA; cl17759 138119002416 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119002417 EamA-like transporter family; Region: EamA; pfam00892 138119002418 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119002419 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119002420 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 138119002421 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 138119002422 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 138119002423 putative Iron-sulfur protein interface [polypeptide binding]; other site 138119002424 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 138119002425 proximal heme binding site [chemical binding]; other site 138119002426 distal heme binding site [chemical binding]; other site 138119002427 putative dimer interface [polypeptide binding]; other site 138119002428 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 138119002429 L-aspartate oxidase; Provisional; Region: PRK06175 138119002430 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 138119002431 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 138119002432 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 138119002433 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 138119002434 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 138119002435 substrate binding pocket [chemical binding]; other site 138119002436 membrane-bound complex binding site; other site 138119002437 hinge residues; other site 138119002438 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 138119002439 dimer interface [polypeptide binding]; other site 138119002440 conserved gate region; other site 138119002441 putative PBP binding loops; other site 138119002442 ABC-ATPase subunit interface; other site 138119002443 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 138119002444 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 138119002445 dimer interface [polypeptide binding]; other site 138119002446 conserved gate region; other site 138119002447 putative PBP binding loops; other site 138119002448 ABC-ATPase subunit interface; other site 138119002449 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119002450 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119002451 Walker A/P-loop; other site 138119002452 ATP binding site [chemical binding]; other site 138119002453 Q-loop/lid; other site 138119002454 ABC transporter signature motif; other site 138119002455 Walker B; other site 138119002456 D-loop; other site 138119002457 H-loop/switch region; other site 138119002458 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 138119002459 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 138119002460 5S rRNA interface [nucleotide binding]; other site 138119002461 CTC domain interface [polypeptide binding]; other site 138119002462 L16 interface [polypeptide binding]; other site 138119002463 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 138119002464 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 138119002465 active site 138119002466 metal binding site [ion binding]; metal-binding site 138119002467 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 138119002468 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119002469 DNA binding residues [nucleotide binding] 138119002470 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 138119002471 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119002472 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 138119002473 non-specific DNA binding site [nucleotide binding]; other site 138119002474 salt bridge; other site 138119002475 sequence-specific DNA binding site [nucleotide binding]; other site 138119002476 Arginase family; Region: Arginase; cd09989 138119002477 agmatinase; Region: agmatinase; TIGR01230 138119002478 active site 138119002479 Mn binding site [ion binding]; other site 138119002480 oligomer interface [polypeptide binding]; other site 138119002481 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 138119002482 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119002483 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 138119002484 DNA binding residues [nucleotide binding] 138119002485 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 138119002486 amidohydrolase; Region: amidohydrolases; TIGR01891 138119002487 metal binding site [ion binding]; metal-binding site 138119002488 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 138119002489 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 138119002490 active site 138119002491 metal binding site [ion binding]; metal-binding site 138119002492 DNA binding site [nucleotide binding] 138119002493 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 138119002494 exonuclease SbcC; Region: sbcc; TIGR00618 138119002495 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 138119002496 Walker A/P-loop; other site 138119002497 ATP binding site [chemical binding]; other site 138119002498 Q-loop/lid; other site 138119002499 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119002500 ABC transporter signature motif; other site 138119002501 Walker B; other site 138119002502 D-loop; other site 138119002503 H-loop/switch region; other site 138119002504 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 138119002505 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_3; cd08975 138119002506 putative DNA binding site [nucleotide binding]; other site 138119002507 catalytic residue [active] 138119002508 putative H2TH interface [polypeptide binding]; other site 138119002509 putative catalytic residues [active] 138119002510 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 138119002511 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 138119002512 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 138119002513 Predicted transcriptional regulator [Transcription]; Region: COG2378 138119002514 HTH domain; Region: HTH_11; pfam08279 138119002515 WYL domain; Region: WYL; pfam13280 138119002516 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 138119002517 Uncharacterized conserved protein [Function unknown]; Region: COG2966 138119002518 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 138119002519 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 138119002520 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 138119002521 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 138119002522 heterotetramer interface [polypeptide binding]; other site 138119002523 active site pocket [active] 138119002524 cleavage site 138119002525 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 138119002526 feedback inhibition sensing region; other site 138119002527 homohexameric interface [polypeptide binding]; other site 138119002528 nucleotide binding site [chemical binding]; other site 138119002529 N-acetyl-L-glutamate binding site [chemical binding]; other site 138119002530 acetylornithine aminotransferase; Provisional; Region: PRK02627 138119002531 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 138119002532 inhibitor-cofactor binding pocket; inhibition site 138119002533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119002534 catalytic residue [active] 138119002535 hypothetical protein; Validated; Region: PRK07121 138119002536 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119002537 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119002538 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 138119002539 sequence-specific DNA binding site [nucleotide binding]; other site 138119002540 salt bridge; other site 138119002541 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119002542 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 138119002543 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 138119002544 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 138119002545 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 138119002546 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 138119002547 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119002548 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119002549 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119002550 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 138119002551 VanW like protein; Region: VanW; pfam04294 138119002552 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119002553 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 138119002554 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119002555 putative substrate translocation pore; other site 138119002556 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119002557 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 138119002558 molybdopterin cofactor binding site; other site 138119002559 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119002560 molybdopterin cofactor binding site; other site 138119002561 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 138119002562 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 138119002563 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 138119002564 putative substrate translocation pore; other site 138119002565 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119002566 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 138119002567 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 138119002568 putative substrate translocation pore; other site 138119002569 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 138119002570 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 138119002571 Walker A motif; other site 138119002572 ATP binding site [chemical binding]; other site 138119002573 Walker B motif; other site 138119002574 arginine finger; other site 138119002575 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 138119002576 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119002577 EamA-like transporter family; Region: EamA; pfam00892 138119002578 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 138119002579 Double zinc ribbon; Region: DZR; pfam12773 138119002580 ornithine carbamoyltransferase; Provisional; Region: PRK00779 138119002581 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 138119002582 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 138119002583 argininosuccinate synthase; Provisional; Region: PRK13820 138119002584 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 138119002585 ANP binding site [chemical binding]; other site 138119002586 Substrate Binding Site II [chemical binding]; other site 138119002587 Substrate Binding Site I [chemical binding]; other site 138119002588 argininosuccinate lyase; Provisional; Region: PRK00855 138119002589 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 138119002590 active sites [active] 138119002591 tetramer interface [polypeptide binding]; other site 138119002592 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 138119002593 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 138119002594 active site 138119002595 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 138119002596 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 138119002597 homodimer interface [polypeptide binding]; other site 138119002598 NAD binding pocket [chemical binding]; other site 138119002599 ATP binding pocket [chemical binding]; other site 138119002600 Mg binding site [ion binding]; other site 138119002601 active-site loop [active] 138119002602 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 138119002603 ATP binding site [chemical binding]; other site 138119002604 active site 138119002605 substrate binding site [chemical binding]; other site 138119002606 Uncharacterized conserved protein [Function unknown]; Region: COG5663 138119002607 hypothetical protein; Provisional; Region: PRK10410 138119002608 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 138119002609 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138119002610 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119002611 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119002612 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 138119002613 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119002614 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 138119002615 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 138119002616 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 138119002617 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 138119002618 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 138119002619 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 138119002620 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119002621 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119002622 transmembrane helices; other site 138119002623 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002625 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002626 dimerization interface [polypeptide binding]; other site 138119002627 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119002628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119002629 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119002630 dimerization interface [polypeptide binding]; other site 138119002631 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 138119002632 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 138119002633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119002634 catalytic residue [active] 138119002635 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 138119002636 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 138119002637 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 138119002638 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 138119002639 active site 138119002640 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 138119002641 Int/Topo IB signature motif; other site 138119002642 Transposase, Mutator family; Region: Transposase_mut; pfam00872 138119002643 MULE transposase domain; Region: MULE; pfam10551 138119002644 putative transposase OrfB; Reviewed; Region: PHA02517 138119002645 HTH-like domain; Region: HTH_21; pfam13276 138119002646 Integrase core domain; Region: rve; pfam00665 138119002647 Integrase core domain; Region: rve_3; pfam13683 138119002648 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119002649 Transposase; Region: HTH_Tnp_1; pfam01527 138119002650 transposase/IS protein; Provisional; Region: PRK09183 138119002651 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 138119002652 Walker A motif; other site 138119002653 ATP binding site [chemical binding]; other site 138119002654 Walker B motif; other site 138119002655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 138119002656 putative transposase OrfB; Reviewed; Region: PHA02517 138119002657 HTH-like domain; Region: HTH_21; pfam13276 138119002658 Integrase core domain; Region: rve; pfam00665 138119002659 Integrase core domain; Region: rve_3; cl15866 138119002660 Transposase; Region: HTH_Tnp_1; cl17663 138119002661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119002662 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119002663 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 138119002664 active site 138119002665 phosphorylation site [posttranslational modification] 138119002666 intermolecular recognition site; other site 138119002667 dimerization interface [polypeptide binding]; other site 138119002668 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 138119002669 DNA binding site [nucleotide binding] 138119002670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119002671 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119002672 dimerization interface [polypeptide binding]; other site 138119002673 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 138119002674 dimer interface [polypeptide binding]; other site 138119002675 phosphorylation site [posttranslational modification] 138119002676 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 138119002677 ATP binding site [chemical binding]; other site 138119002678 Mg2+ binding site [ion binding]; other site 138119002679 G-X-G motif; other site 138119002680 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 138119002681 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 138119002682 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119002683 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119002684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119002685 metal binding site [ion binding]; metal-binding site 138119002686 active site 138119002687 I-site; other site 138119002688 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 138119002689 Heavy-metal-associated domain; Region: HMA; pfam00403 138119002690 metal-binding site [ion binding] 138119002691 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119002692 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 138119002693 metal-binding site [ion binding] 138119002694 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 138119002695 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119002696 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119002697 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 138119002698 dimerization interface [polypeptide binding]; other site 138119002699 putative DNA binding site [nucleotide binding]; other site 138119002700 putative Zn2+ binding site [ion binding]; other site 138119002701 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 138119002702 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 138119002703 active site 138119002704 catalytic residues [active] 138119002705 DNA binding site [nucleotide binding] 138119002706 Int/Topo IB signature motif; other site 138119002707 Helix-turn-helix domain; Region: HTH_17; pfam12728 138119002708 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 138119002709 active site 138119002710 Int/Topo IB signature motif; other site 138119002711 DNA binding site [nucleotide binding] 138119002712 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 138119002713 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 138119002714 Walker A motif; other site 138119002715 ATP binding site [chemical binding]; other site 138119002716 Walker B motif; other site 138119002717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 138119002718 Integrase core domain; Region: rve; pfam00665 138119002719 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 138119002720 HSP70 interaction site [polypeptide binding]; other site 138119002721 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119002722 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119002723 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119002724 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 138119002725 active site 138119002726 DNA binding site [nucleotide binding] 138119002727 Int/Topo IB signature motif; other site 138119002728 Transposase, Mutator family; Region: Transposase_mut; pfam00872 138119002729 MULE transposase domain; Region: MULE; pfam10551 138119002730 Domain of unknown function (DUF955); Region: DUF955; pfam06114 138119002731 PsaD; Region: PsaD; cl03639 138119002732 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119002733 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119002734 dimerization interface [polypeptide binding]; other site 138119002735 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 138119002736 dimer interface [polypeptide binding]; other site 138119002737 phosphorylation site [posttranslational modification] 138119002738 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 138119002739 ATP binding site [chemical binding]; other site 138119002740 Mg2+ binding site [ion binding]; other site 138119002741 G-X-G motif; other site 138119002742 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119002743 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 138119002744 active site 138119002745 phosphorylation site [posttranslational modification] 138119002746 intermolecular recognition site; other site 138119002747 dimerization interface [polypeptide binding]; other site 138119002748 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 138119002749 DNA binding site [nucleotide binding] 138119002750 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119002751 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119002752 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119002753 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 138119002754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119002755 Walker A/P-loop; other site 138119002756 ATP binding site [chemical binding]; other site 138119002757 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 138119002758 S-adenosylmethionine binding site [chemical binding]; other site 138119002759 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119002760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119002761 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119002762 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 138119002763 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119002764 Walker A motif; other site 138119002765 ATP binding site [chemical binding]; other site 138119002766 Walker B motif; other site 138119002767 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119002768 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119002769 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 138119002770 short chain dehydrogenase; Provisional; Region: PRK06172 138119002771 classical (c) SDRs; Region: SDR_c; cd05233 138119002772 NAD(P) binding site [chemical binding]; other site 138119002773 active site 138119002774 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 138119002775 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 138119002776 putative substrate translocation pore; other site 138119002777 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119002778 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119002779 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119002780 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119002781 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119002782 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 138119002783 putative substrate translocation pore; other site 138119002784 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 138119002785 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119002786 catalytic loop [active] 138119002787 iron binding site [ion binding]; other site 138119002788 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 138119002789 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 138119002790 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 138119002791 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 138119002792 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 138119002793 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 138119002794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119002795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119002796 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 138119002797 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 138119002798 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 138119002799 Ligand binding site; other site 138119002800 metal-binding site 138119002801 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 138119002802 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 138119002803 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119002804 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 138119002805 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 138119002806 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 138119002807 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 138119002808 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 138119002809 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119002810 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119002811 Methyltransferase domain; Region: Methyltransf_23; pfam13489 138119002812 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 138119002813 S-adenosylmethionine binding site [chemical binding]; other site 138119002814 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 138119002815 metal-binding site 138119002816 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119002817 Zn2+ binding site [ion binding]; other site 138119002818 Mg2+ binding site [ion binding]; other site 138119002819 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 138119002820 catalytic core [active] 138119002821 XdhC Rossmann domain; Region: XdhC_C; pfam13478 138119002822 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 138119002823 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 138119002824 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 138119002825 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 138119002826 FeS/SAM binding site; other site 138119002827 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 138119002828 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119002829 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 138119002830 acyl-activating enzyme (AAE) consensus motif; other site 138119002831 AMP binding site [chemical binding]; other site 138119002832 active site 138119002833 CoA binding site [chemical binding]; other site 138119002834 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 138119002835 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119002836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 138119002837 Histidine kinase; Region: HisKA_3; pfam07730 138119002838 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 138119002839 ATP binding site [chemical binding]; other site 138119002840 Mg2+ binding site [ion binding]; other site 138119002841 G-X-G motif; other site 138119002842 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119002843 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 138119002844 active site 138119002845 phosphorylation site [posttranslational modification] 138119002846 intermolecular recognition site; other site 138119002847 dimerization interface [polypeptide binding]; other site 138119002848 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 138119002849 DNA binding residues [nucleotide binding] 138119002850 dimerization interface [polypeptide binding]; other site 138119002851 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 138119002852 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119002853 molybdopterin cofactor binding site; other site 138119002854 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119002855 molybdopterin cofactor binding site; other site 138119002856 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119002857 4Fe-4S binding domain; Region: Fer4; pfam00037 138119002858 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119002859 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119002860 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119002861 NADH-plastoquinone oxidoreductase subunit; Provisional; Region: PRK08348 138119002862 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119002863 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119002864 dimer interface [polypeptide binding]; other site 138119002865 putative CheW interface [polypeptide binding]; other site 138119002866 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 138119002867 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119002868 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 138119002869 DNA binding residues [nucleotide binding] 138119002870 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119002871 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119002872 molybdopterin cofactor binding site; other site 138119002873 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119002874 molybdopterin cofactor binding site; other site 138119002875 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119002876 4Fe-4S binding domain; Region: Fer4; pfam00037 138119002877 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119002878 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119002879 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119002880 Ferredoxin [Energy production and conversion]; Region: COG1146 138119002881 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 138119002882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119002883 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119002884 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 138119002885 hypothetical protein; Validated; Region: PRK07121 138119002886 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 138119002887 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 138119002888 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 138119002889 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 138119002890 active site 138119002891 phosphorylation site [posttranslational modification] 138119002892 intermolecular recognition site; other site 138119002893 dimerization interface [polypeptide binding]; other site 138119002894 LytTr DNA-binding domain; Region: LytTR; pfam04397 138119002895 Meckelin (Transmembrane protein 67); Region: Meckelin; pfam09773 138119002896 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 138119002897 ATP binding site [chemical binding]; other site 138119002898 Mg2+ binding site [ion binding]; other site 138119002899 G-X-G motif; other site 138119002900 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 138119002901 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 138119002902 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119002903 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 138119002904 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 138119002905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119002906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119002907 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119002908 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119002909 Walker A/P-loop; other site 138119002910 ATP binding site [chemical binding]; other site 138119002911 Q-loop/lid; other site 138119002912 ABC transporter signature motif; other site 138119002913 Walker B; other site 138119002914 D-loop; other site 138119002915 H-loop/switch region; other site 138119002916 Mononegavirales RNA dependent RNA polymerase; Region: Mononeg_RNA_pol; pfam00946 138119002917 Uncharacterized conserved protein [Function unknown]; Region: COG4715 138119002918 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 138119002919 Predicted membrane protein [Function unknown]; Region: COG4905 138119002920 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 138119002921 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 138119002922 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 138119002923 Helix-turn-helix domain; Region: HTH_17; pfam12728 138119002924 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119002925 putative active site [active] 138119002926 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119002927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119002928 Transposase IS200 like; Region: Y1_Tnp; pfam01797 138119002929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 138119002930 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 138119002931 Probable transposase; Region: OrfB_IS605; pfam01385 138119002932 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 138119002933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119002934 dimer interface [polypeptide binding]; other site 138119002935 putative CheW interface [polypeptide binding]; other site 138119002936 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119002937 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119002938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119002939 Walker A/P-loop; other site 138119002940 ATP binding site [chemical binding]; other site 138119002941 Q-loop/lid; other site 138119002942 ABC transporter signature motif; other site 138119002943 Walker B; other site 138119002944 D-loop; other site 138119002945 H-loop/switch region; other site 138119002946 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119002947 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119002948 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119002949 Walker A/P-loop; other site 138119002950 ATP binding site [chemical binding]; other site 138119002951 Q-loop/lid; other site 138119002952 ABC transporter signature motif; other site 138119002953 Walker B; other site 138119002954 D-loop; other site 138119002955 H-loop/switch region; other site 138119002956 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119002957 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119002958 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119002959 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 138119002960 putative Zn2+ binding site [ion binding]; other site 138119002961 putative DNA binding site [nucleotide binding]; other site 138119002962 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 138119002963 FMN binding site [chemical binding]; other site 138119002964 dimer interface [polypeptide binding]; other site 138119002965 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 138119002966 nucleotide binding site/active site [active] 138119002967 HIT family signature motif; other site 138119002968 catalytic residue [active] 138119002969 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 138119002970 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 138119002971 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 138119002972 Restriction endonuclease; Region: Mrr_cat; pfam04471 138119002973 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 138119002974 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119002975 catalytic loop [active] 138119002976 iron binding site [ion binding]; other site 138119002977 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119002978 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119002979 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 138119002980 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 138119002981 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 138119002982 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 138119002983 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 138119002984 Walker A motif; other site 138119002985 ATP binding site [chemical binding]; other site 138119002986 Walker B motif; other site 138119002987 arginine finger; other site 138119002988 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119002989 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 138119002990 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 138119002991 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 138119002992 active site 138119002993 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 138119002994 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119002995 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 138119002996 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 138119002997 active site 138119002998 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 138119002999 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119003000 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 138119003001 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119003002 putative substrate translocation pore; other site 138119003003 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119003004 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119003005 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 138119003006 acyl-activating enzyme (AAE) consensus motif; other site 138119003007 acyl-activating enzyme (AAE) consensus motif; other site 138119003008 putative AMP binding site [chemical binding]; other site 138119003009 putative active site [active] 138119003010 putative CoA binding site [chemical binding]; other site 138119003011 oxidoreductase; Provisional; Region: PRK10015 138119003012 ferredoxin-like protein FixX; Provisional; Region: PRK15449 138119003013 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 138119003014 Ligand binding site [chemical binding]; other site 138119003015 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119003016 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 138119003017 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 138119003018 Ligand Binding Site [chemical binding]; other site 138119003019 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119003020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119003021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119003022 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119003023 dimerization interface [polypeptide binding]; other site 138119003024 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119003025 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119003026 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 138119003027 EamA-like transporter family; Region: EamA; pfam00892 138119003028 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119003029 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119003030 hypothetical protein; Validated; Region: PRK07668 138119003031 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 138119003032 Isochorismatase family; Region: Isochorismatase; pfam00857 138119003033 catalytic triad [active] 138119003034 conserved cis-peptide bond; other site 138119003035 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 138119003036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 138119003037 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 138119003038 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 138119003039 metal ion-dependent adhesion site (MIDAS); other site 138119003040 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119003041 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 138119003042 Walker A motif; other site 138119003043 ATP binding site [chemical binding]; other site 138119003044 Walker B motif; other site 138119003045 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119003046 DNA-binding site [nucleotide binding]; DNA binding site 138119003047 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 138119003048 FCD domain; Region: FCD; pfam07729 138119003049 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 138119003050 hypothetical protein; Validated; Region: PRK07121 138119003051 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119003052 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 138119003053 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119003054 Walker A motif; other site 138119003055 ATP binding site [chemical binding]; other site 138119003056 Walker B motif; other site 138119003057 arginine finger; other site 138119003058 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119003059 Predicted membrane protein [Function unknown]; Region: COG2259 138119003060 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119003061 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; cd00625 138119003062 transmembrane helices; other site 138119003063 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 138119003064 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 138119003065 Creatinine amidohydrolase; Region: Creatininase; pfam02633 138119003066 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 138119003067 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 138119003068 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 138119003069 putative ligand binding site [chemical binding]; other site 138119003070 putative NAD binding site [chemical binding]; other site 138119003071 catalytic site [active] 138119003072 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 138119003073 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 138119003074 active site 138119003075 catalytic residues [active] 138119003076 metal binding site [ion binding]; metal-binding site 138119003077 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 138119003078 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 138119003079 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 138119003080 putative oxidoreductase; Provisional; Region: PRK08275 138119003081 L-aspartate oxidase; Provisional; Region: PRK06175 138119003082 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 138119003083 Ferredoxin [Energy production and conversion]; Region: COG1146 138119003084 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 138119003085 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 138119003086 Uncharacterized conserved protein [Function unknown]; Region: COG5276 138119003087 LVIVD repeat; Region: LVIVD; pfam08309 138119003088 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119003089 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119003090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119003091 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119003092 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 138119003093 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 138119003094 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 138119003095 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 138119003096 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 138119003097 CoA-ligase; Region: Ligase_CoA; pfam00549 138119003098 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 138119003099 CoA binding domain; Region: CoA_binding; pfam02629 138119003100 CoA-ligase; Region: Ligase_CoA; pfam00549 138119003101 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119003102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119003103 DNA-binding site [nucleotide binding]; DNA binding site 138119003104 FCD domain; Region: FCD; pfam07729 138119003105 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 138119003106 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 138119003107 hexamer interface [polypeptide binding]; other site 138119003108 ligand binding site [chemical binding]; other site 138119003109 putative active site [active] 138119003110 NAD(P) binding site [chemical binding]; other site 138119003111 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 138119003112 MtaA_CmuA_like family. MtaA/CmuA, also MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M isozymes, are methylcobamide:Coenzyme M methyltransferases, which play a role in metabolic pathways of methane formation from various substrates, such as methylated...; Region: Mta_CmuA_like; cd03307 138119003113 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 138119003114 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119003115 Phosphotransferase enzyme family; Region: APH; pfam01636 138119003116 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 138119003117 substrate binding site [chemical binding]; other site 138119003118 enolase; Provisional; Region: eno; PRK00077 138119003119 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 138119003120 dimer interface [polypeptide binding]; other site 138119003121 metal binding site [ion binding]; metal-binding site 138119003122 substrate binding pocket [chemical binding]; other site 138119003123 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 138119003124 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 138119003125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 138119003126 4Fe-4S binding domain; Region: Fer4; pfam00037 138119003127 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 138119003129 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 138119003130 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 138119003131 putative ligand binding site [chemical binding]; other site 138119003132 putative NAD binding site [chemical binding]; other site 138119003133 catalytic site [active] 138119003134 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 138119003135 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 138119003136 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119003137 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 138119003138 S-adenosylmethionine binding site [chemical binding]; other site 138119003139 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119003140 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119003141 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119003142 dimerization interface [polypeptide binding]; other site 138119003143 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119003144 dimer interface [polypeptide binding]; other site 138119003145 putative CheW interface [polypeptide binding]; other site 138119003146 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 138119003147 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119003148 MarR family; Region: MarR_2; pfam12802 138119003149 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119003150 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 138119003151 siderophore binding site; other site 138119003152 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 138119003153 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 138119003154 ABC-ATPase subunit interface; other site 138119003155 dimer interface [polypeptide binding]; other site 138119003156 putative PBP binding regions; other site 138119003157 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 138119003158 ABC-ATPase subunit interface; other site 138119003159 dimer interface [polypeptide binding]; other site 138119003160 putative PBP binding regions; other site 138119003161 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119003162 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119003163 Walker A/P-loop; other site 138119003164 ATP binding site [chemical binding]; other site 138119003165 Q-loop/lid; other site 138119003166 ABC transporter signature motif; other site 138119003167 Walker B; other site 138119003168 D-loop; other site 138119003169 H-loop/switch region; other site 138119003170 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 138119003171 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 138119003172 FeS/SAM binding site; other site 138119003173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119003174 Coenzyme A binding pocket [chemical binding]; other site 138119003175 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 138119003176 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 138119003177 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 138119003178 dimer interface [polypeptide binding]; other site 138119003179 active site 138119003180 heme binding site [chemical binding]; other site 138119003181 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 138119003182 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119003183 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 138119003184 non-specific DNA binding site [nucleotide binding]; other site 138119003185 salt bridge; other site 138119003186 sequence-specific DNA binding site [nucleotide binding]; other site 138119003187 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119003188 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119003189 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119003190 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 138119003191 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119003192 DNA binding residues [nucleotide binding] 138119003193 dimer interface [polypeptide binding]; other site 138119003194 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 138119003195 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 138119003196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119003197 NAD(P) binding site [chemical binding]; other site 138119003198 active site 138119003199 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 138119003200 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 138119003201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119003202 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 138119003203 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 138119003204 DNA binding site [nucleotide binding] 138119003205 active site 138119003206 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 138119003207 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 138119003208 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119003209 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 138119003210 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 138119003211 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 138119003212 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 138119003213 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 138119003214 polyphosphate kinase; Provisional; Region: PRK05443 138119003215 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 138119003216 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 138119003217 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 138119003218 putative domain interface [polypeptide binding]; other site 138119003219 putative active site [active] 138119003220 catalytic site [active] 138119003221 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 138119003222 putative domain interface [polypeptide binding]; other site 138119003223 putative active site [active] 138119003224 catalytic site [active] 138119003225 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 138119003226 catalytic core [active] 138119003227 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 138119003228 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 138119003229 active site 138119003230 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 138119003231 non-specific DNA binding site [nucleotide binding]; other site 138119003232 salt bridge; other site 138119003233 sequence-specific DNA binding site [nucleotide binding]; other site 138119003234 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119003235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119003236 Zn2+ binding site [ion binding]; other site 138119003237 Mg2+ binding site [ion binding]; other site 138119003238 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119003239 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119003240 dimerization interface [polypeptide binding]; other site 138119003241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119003242 dimer interface [polypeptide binding]; other site 138119003243 putative CheW interface [polypeptide binding]; other site 138119003244 RNA polymerase factor sigma-70; Validated; Region: PRK06811 138119003245 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119003246 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 138119003247 DNA binding residues [nucleotide binding] 138119003248 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 138119003249 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119003250 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 138119003251 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119003252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 138119003253 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119003254 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 138119003255 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119003256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003257 Q-loop/lid; other site 138119003258 ABC transporter signature motif; other site 138119003259 Walker B; other site 138119003260 D-loop; other site 138119003261 H-loop/switch region; other site 138119003262 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 138119003263 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 138119003264 Predicted transcriptional regulators [Transcription]; Region: COG1733 138119003265 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 138119003266 dimerization interface [polypeptide binding]; other site 138119003267 putative DNA binding site [nucleotide binding]; other site 138119003268 putative Zn2+ binding site [ion binding]; other site 138119003269 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 138119003270 active site 138119003271 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 138119003272 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 138119003273 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119003274 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119003275 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119003276 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 138119003277 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 138119003278 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 138119003279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119003280 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003281 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003282 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 138119003283 Walker A/P-loop; other site 138119003284 ATP binding site [chemical binding]; other site 138119003285 Q-loop/lid; other site 138119003286 ABC transporter signature motif; other site 138119003287 Walker B; other site 138119003288 D-loop; other site 138119003289 H-loop/switch region; other site 138119003290 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003291 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003293 Walker A/P-loop; other site 138119003294 ATP binding site [chemical binding]; other site 138119003295 Q-loop/lid; other site 138119003296 ABC transporter signature motif; other site 138119003297 Walker B; other site 138119003298 D-loop; other site 138119003299 H-loop/switch region; other site 138119003300 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 138119003301 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 138119003302 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 138119003303 dimerization interface [polypeptide binding]; other site 138119003304 putative DNA binding site [nucleotide binding]; other site 138119003305 putative Zn2+ binding site [ion binding]; other site 138119003306 Nitroreductase family; Region: Nitroreductase; pfam00881 138119003307 FMN binding site [chemical binding]; other site 138119003308 dimer interface [polypeptide binding]; other site 138119003309 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 138119003310 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 138119003311 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 138119003312 active site 138119003313 HIGH motif; other site 138119003314 dimer interface [polypeptide binding]; other site 138119003315 KMSKS motif; other site 138119003316 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 138119003317 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119003318 DNA binding residues [nucleotide binding] 138119003319 dimerization interface [polypeptide binding]; other site 138119003320 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119003321 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 138119003322 NAD binding site [chemical binding]; other site 138119003323 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119003324 FMN-binding domain; Region: FMN_bind; cl01081 138119003325 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 138119003326 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 138119003327 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 138119003328 DNA binding residues [nucleotide binding] 138119003329 drug binding residues [chemical binding]; other site 138119003330 dimer interface [polypeptide binding]; other site 138119003331 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 138119003332 Protein of unknown function (DUF554); Region: DUF554; pfam04474 138119003333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003334 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 138119003335 active site 138119003336 phosphorylation site [posttranslational modification] 138119003337 intermolecular recognition site; other site 138119003338 dimerization interface [polypeptide binding]; other site 138119003339 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 138119003340 DNA binding site [nucleotide binding] 138119003341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119003342 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 138119003343 dimer interface [polypeptide binding]; other site 138119003344 phosphorylation site [posttranslational modification] 138119003345 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 138119003346 ATP binding site [chemical binding]; other site 138119003347 Mg2+ binding site [ion binding]; other site 138119003348 G-X-G motif; other site 138119003349 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119003350 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119003351 Walker A/P-loop; other site 138119003352 ATP binding site [chemical binding]; other site 138119003353 Q-loop/lid; other site 138119003354 ABC transporter signature motif; other site 138119003355 Walker B; other site 138119003356 D-loop; other site 138119003357 H-loop/switch region; other site 138119003358 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119003359 FtsX-like permease family; Region: FtsX; pfam02687 138119003360 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119003361 FtsX-like permease family; Region: FtsX; pfam02687 138119003362 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119003363 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119003364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119003365 Coenzyme A binding pocket [chemical binding]; other site 138119003366 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003367 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003368 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003369 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 138119003370 Interdomain contacts; other site 138119003371 Cytokine receptor motif; other site 138119003372 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 138119003373 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 138119003374 Interdomain contacts; other site 138119003375 Cytokine receptor motif; other site 138119003376 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 138119003377 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119003378 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119003379 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119003380 putative active site [active] 138119003381 Predicted ATPase [General function prediction only]; Region: COG3910 138119003382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003383 Walker A/P-loop; other site 138119003384 ATP binding site [chemical binding]; other site 138119003385 Q-loop/lid; other site 138119003386 ABC transporter signature motif; other site 138119003387 Walker B; other site 138119003388 D-loop; other site 138119003389 H-loop/switch region; other site 138119003390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119003391 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119003392 dimerization interface [polypeptide binding]; other site 138119003393 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 138119003394 dimer interface [polypeptide binding]; other site 138119003395 phosphorylation site [posttranslational modification] 138119003396 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 138119003397 ATP binding site [chemical binding]; other site 138119003398 Mg2+ binding site [ion binding]; other site 138119003399 G-X-G motif; other site 138119003400 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003401 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 138119003402 active site 138119003403 phosphorylation site [posttranslational modification] 138119003404 intermolecular recognition site; other site 138119003405 dimerization interface [polypeptide binding]; other site 138119003406 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 138119003407 DNA binding site [nucleotide binding] 138119003408 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 138119003409 dimer interface [polypeptide binding]; other site 138119003410 conserved gate region; other site 138119003411 ABC-ATPase subunit interface; other site 138119003412 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 138119003413 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 138119003414 dimer interface [polypeptide binding]; other site 138119003415 conserved gate region; other site 138119003416 putative PBP binding loops; other site 138119003417 ABC-ATPase subunit interface; other site 138119003418 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119003419 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119003420 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119003421 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 138119003422 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 138119003423 Walker A/P-loop; other site 138119003424 ATP binding site [chemical binding]; other site 138119003425 Q-loop/lid; other site 138119003426 ABC transporter signature motif; other site 138119003427 Walker B; other site 138119003428 D-loop; other site 138119003429 H-loop/switch region; other site 138119003430 TOBE domain; Region: TOBE_2; pfam08402 138119003431 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 138119003432 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 138119003433 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 138119003434 S-adenosylmethionine binding site [chemical binding]; other site 138119003435 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 138119003436 EamA-like transporter family; Region: EamA; pfam00892 138119003437 EamA-like transporter family; Region: EamA; pfam00892 138119003438 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119003439 Penicillinase repressor; Region: Pencillinase_R; cl17580 138119003440 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119003441 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003442 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003444 Walker A/P-loop; other site 138119003445 ATP binding site [chemical binding]; other site 138119003446 Q-loop/lid; other site 138119003447 ABC transporter signature motif; other site 138119003448 Walker B; other site 138119003449 D-loop; other site 138119003450 H-loop/switch region; other site 138119003451 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 138119003452 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003453 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119003454 Walker A/P-loop; other site 138119003455 ATP binding site [chemical binding]; other site 138119003456 Q-loop/lid; other site 138119003457 ABC transporter signature motif; other site 138119003458 Walker B; other site 138119003459 D-loop; other site 138119003460 H-loop/switch region; other site 138119003461 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119003462 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119003463 Walker A/P-loop; other site 138119003464 ATP binding site [chemical binding]; other site 138119003465 Q-loop/lid; other site 138119003466 ABC transporter signature motif; other site 138119003467 Walker B; other site 138119003468 D-loop; other site 138119003469 H-loop/switch region; other site 138119003470 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119003471 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119003472 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119003473 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 138119003474 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 138119003475 A new structural DNA glycosylase; Region: AlkD_like; cd06561 138119003476 active site 138119003477 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 138119003478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119003479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119003480 dimer interface [polypeptide binding]; other site 138119003481 putative CheW interface [polypeptide binding]; other site 138119003482 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 138119003483 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119003484 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119003485 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 138119003486 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 138119003487 putative active site [active] 138119003488 metal binding site [ion binding]; metal-binding site 138119003489 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 138119003490 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 138119003491 NAD(P) binding site [chemical binding]; other site 138119003492 catalytic residues [active] 138119003493 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119003494 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119003495 Acyltransferase family; Region: Acyl_transf_3; pfam01757 138119003496 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 138119003497 catalytic triad [active] 138119003498 catalytic triad [active] 138119003499 oxyanion hole [active] 138119003500 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003501 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 138119003502 active site 138119003503 phosphorylation site [posttranslational modification] 138119003504 intermolecular recognition site; other site 138119003505 dimerization interface [polypeptide binding]; other site 138119003506 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 138119003507 DNA binding site [nucleotide binding] 138119003508 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119003509 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119003510 dimerization interface [polypeptide binding]; other site 138119003511 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 138119003512 dimer interface [polypeptide binding]; other site 138119003513 phosphorylation site [posttranslational modification] 138119003514 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 138119003515 ATP binding site [chemical binding]; other site 138119003516 Mg2+ binding site [ion binding]; other site 138119003517 G-X-G motif; other site 138119003518 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 138119003519 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 138119003520 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 138119003521 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119003522 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 138119003523 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 138119003524 Na binding site [ion binding]; other site 138119003525 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 138119003526 peptidase T-like protein; Region: PepT-like; TIGR01883 138119003527 metal binding site [ion binding]; metal-binding site 138119003528 putative dimer interface [polypeptide binding]; other site 138119003529 Protein of unknown function (DUF917); Region: DUF917; pfam06032 138119003530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119003531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119003532 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119003533 dimerization interface [polypeptide binding]; other site 138119003534 hypothetical protein; Validated; Region: PRK07121 138119003535 L-aspartate oxidase; Provisional; Region: PRK06175 138119003536 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119003537 FMN-binding domain; Region: FMN_bind; pfam04205 138119003538 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 138119003539 B3/4 domain; Region: B3_4; pfam03483 138119003540 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 138119003541 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 138119003542 putative DNA binding site [nucleotide binding]; other site 138119003543 putative Zn2+ binding site [ion binding]; other site 138119003544 AsnC family; Region: AsnC_trans_reg; pfam01037 138119003545 Uncharacterized conserved protein [Function unknown]; Region: COG2128 138119003546 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119003547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119003548 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 138119003549 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 138119003550 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 138119003551 Domain of unknown function (DUF4183); Region: DUF4183; pfam13799 138119003552 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 138119003553 Response regulator receiver domain; Region: Response_reg; pfam00072 138119003554 active site 138119003555 phosphorylation site [posttranslational modification] 138119003556 intermolecular recognition site; other site 138119003557 dimerization interface [polypeptide binding]; other site 138119003558 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119003559 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 138119003560 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119003561 S-adenosylmethionine binding site [chemical binding]; other site 138119003562 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 138119003563 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 138119003564 G1 box; other site 138119003565 putative GEF interaction site [polypeptide binding]; other site 138119003566 GTP/Mg2+ binding site [chemical binding]; other site 138119003567 Switch I region; other site 138119003568 G2 box; other site 138119003569 G3 box; other site 138119003570 Switch II region; other site 138119003571 G4 box; other site 138119003572 G5 box; other site 138119003573 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 138119003574 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 138119003575 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 138119003576 YacP-like NYN domain; Region: NYN_YacP; pfam05991 138119003577 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119003578 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 138119003579 ligand binding site [chemical binding]; other site 138119003580 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 138119003581 non-specific DNA interactions [nucleotide binding]; other site 138119003582 DNA binding site [nucleotide binding] 138119003583 sequence specific DNA binding site [nucleotide binding]; other site 138119003584 putative cAMP binding site [chemical binding]; other site 138119003585 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119003586 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 138119003587 ABC-ATPase subunit interface; other site 138119003588 dimer interface [polypeptide binding]; other site 138119003589 putative PBP binding regions; other site 138119003590 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119003591 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119003592 Walker A/P-loop; other site 138119003593 ATP binding site [chemical binding]; other site 138119003594 Q-loop/lid; other site 138119003595 ABC transporter signature motif; other site 138119003596 Walker B; other site 138119003597 D-loop; other site 138119003598 H-loop/switch region; other site 138119003599 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 138119003600 Domain of unknown function (DUF364); Region: DUF364; pfam04016 138119003601 Periplasmic binding protein TroA_e. 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_e; cd01142 138119003602 putative ligand binding residues [chemical binding]; other site 138119003603 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 138119003604 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 138119003605 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 138119003606 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 138119003607 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 138119003608 dimer interface [polypeptide binding]; other site 138119003609 conserved gate region; other site 138119003610 putative PBP binding loops; other site 138119003611 ABC-ATPase subunit interface; other site 138119003612 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 138119003613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003614 Walker A/P-loop; other site 138119003615 ATP binding site [chemical binding]; other site 138119003616 Q-loop/lid; other site 138119003617 ABC transporter signature motif; other site 138119003618 Walker B; other site 138119003619 D-loop; other site 138119003620 H-loop/switch region; other site 138119003621 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 138119003622 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 138119003623 dimerization interface [polypeptide binding]; other site 138119003624 active site 138119003625 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 138119003626 dimerization interface [polypeptide binding]; other site 138119003627 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 138119003628 dimer interface [polypeptide binding]; other site 138119003629 phosphorylation site [posttranslational modification] 138119003630 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 138119003631 ATP binding site [chemical binding]; other site 138119003632 Mg2+ binding site [ion binding]; other site 138119003633 G-X-G motif; other site 138119003634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003635 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 138119003636 active site 138119003637 phosphorylation site [posttranslational modification] 138119003638 intermolecular recognition site; other site 138119003639 dimerization interface [polypeptide binding]; other site 138119003640 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 138119003641 DNA binding site [nucleotide binding] 138119003642 Endomembrane protein 70; Region: EMP70; pfam02990 138119003643 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 138119003644 trimer interface [polypeptide binding]; other site 138119003645 active site 138119003646 substrate binding site [chemical binding]; other site 138119003647 CoA binding site [chemical binding]; other site 138119003648 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 138119003649 Rubredoxin; Region: Rubredoxin; pfam00301 138119003650 iron binding site [ion binding]; other site 138119003651 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 138119003652 iron binding site [ion binding]; other site 138119003653 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; cl00202 138119003654 Rubredoxin; Region: Rubredoxin; pfam00301 138119003655 iron binding site [ion binding]; other site 138119003656 Rubrerythrin [Energy production and conversion]; Region: COG1592 138119003657 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 138119003658 binuclear metal center [ion binding]; other site 138119003659 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 138119003660 iron binding site [ion binding]; other site 138119003661 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 138119003662 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 138119003663 dimerization interface [polypeptide binding]; other site 138119003664 domain crossover interface; other site 138119003665 redox-dependent activation switch; other site 138119003666 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 138119003667 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119003668 DNA binding residues [nucleotide binding] 138119003669 putative dimer interface [polypeptide binding]; other site 138119003670 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 138119003671 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 138119003672 homodimer interaction site [polypeptide binding]; other site 138119003673 cofactor binding site; other site 138119003674 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119003675 FtsX-like permease family; Region: FtsX; pfam02687 138119003676 FtsX-like permease family; Region: FtsX; pfam02687 138119003677 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119003678 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119003679 Walker A/P-loop; other site 138119003680 ATP binding site [chemical binding]; other site 138119003681 Q-loop/lid; other site 138119003682 ABC transporter signature motif; other site 138119003683 Walker B; other site 138119003684 D-loop; other site 138119003685 H-loop/switch region; other site 138119003686 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 138119003687 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119003688 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119003689 MarR family; Region: MarR_2; cl17246 138119003690 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003691 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003692 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003693 Walker A/P-loop; other site 138119003694 ATP binding site [chemical binding]; other site 138119003695 Q-loop/lid; other site 138119003696 ABC transporter signature motif; other site 138119003697 Walker B; other site 138119003698 D-loop; other site 138119003699 H-loop/switch region; other site 138119003700 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003701 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003702 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119003703 Walker A/P-loop; other site 138119003704 ATP binding site [chemical binding]; other site 138119003705 Q-loop/lid; other site 138119003706 ABC transporter signature motif; other site 138119003707 Walker B; other site 138119003708 D-loop; other site 138119003709 H-loop/switch region; other site 138119003710 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 138119003711 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 138119003712 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119003713 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119003714 Walker A/P-loop; other site 138119003715 ATP binding site [chemical binding]; other site 138119003716 Q-loop/lid; other site 138119003717 ABC transporter signature motif; other site 138119003718 Walker B; other site 138119003719 D-loop; other site 138119003720 H-loop/switch region; other site 138119003721 Putative zinc-finger; Region: zf-HC2; pfam13490 138119003722 RNA polymerase sigma factor SigX; Provisional; Region: PRK09639 138119003723 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119003724 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 138119003725 DNA binding residues [nucleotide binding] 138119003726 Helix-turn-helix domain; Region: HTH_18; pfam12833 138119003727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119003728 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 138119003729 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 138119003730 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 138119003731 Cytochrome c; Region: Cytochrom_C; pfam00034 138119003732 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 138119003733 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119003734 TM-ABC transporter signature motif; other site 138119003735 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119003736 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 138119003737 TM-ABC transporter signature motif; other site 138119003738 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 138119003739 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 138119003740 Walker A/P-loop; other site 138119003741 ATP binding site [chemical binding]; other site 138119003742 Q-loop/lid; other site 138119003743 ABC transporter signature motif; other site 138119003744 Walker B; other site 138119003745 D-loop; other site 138119003746 H-loop/switch region; other site 138119003747 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 138119003748 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 138119003749 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 138119003750 ligand binding site [chemical binding]; other site 138119003751 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 138119003752 Ferritin-like domain; Region: Ferritin; pfam00210 138119003753 ferroxidase diiron center [ion binding]; other site 138119003754 Uncharacterized conserved protein [Function unknown]; Region: COG0398 138119003755 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119003756 Hemerythrin; Region: Hemerythrin; cd12107 138119003757 Fe binding site [ion binding]; other site 138119003758 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 138119003759 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 138119003760 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119003761 PAS domain; Region: PAS_9; pfam13426 138119003762 putative active site [active] 138119003763 heme pocket [chemical binding]; other site 138119003764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119003765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119003766 metal binding site [ion binding]; metal-binding site 138119003767 active site 138119003768 I-site; other site 138119003769 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119003770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119003771 Zn2+ binding site [ion binding]; other site 138119003772 Mg2+ binding site [ion binding]; other site 138119003773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003774 Walker A/P-loop; other site 138119003775 ATP binding site [chemical binding]; other site 138119003776 Q-loop/lid; other site 138119003777 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 138119003778 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 138119003779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119003780 Walker A/P-loop; other site 138119003781 ATP binding site [chemical binding]; other site 138119003782 Q-loop/lid; other site 138119003783 ABC transporter signature motif; other site 138119003784 Walker B; other site 138119003785 D-loop; other site 138119003786 H-loop/switch region; other site 138119003787 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 138119003788 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138119003789 Uncharacterized conserved protein [Function unknown]; Region: COG1284 138119003790 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 138119003791 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 138119003792 Part of AAA domain; Region: AAA_19; pfam13245 138119003793 Family description; Region: UvrD_C_2; pfam13538 138119003794 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 138119003795 ArsC family; Region: ArsC; pfam03960 138119003796 putative ArsC-like catalytic residues; other site 138119003797 putative TRX-like catalytic residues [active] 138119003798 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 138119003799 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119003800 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 138119003801 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 138119003802 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119003803 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119003804 PAS domain; Region: PAS_10; pfam13596 138119003805 Predicted transcriptional regulators [Transcription]; Region: COG1725 138119003806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119003807 DNA-binding site [nucleotide binding]; DNA binding site 138119003808 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119003809 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119003810 Walker A/P-loop; other site 138119003811 ATP binding site [chemical binding]; other site 138119003812 Q-loop/lid; other site 138119003813 ABC transporter signature motif; other site 138119003814 Walker B; other site 138119003815 D-loop; other site 138119003816 H-loop/switch region; other site 138119003817 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 138119003818 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119003819 Spore germination protein; Region: Spore_permease; cl17796 138119003820 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 138119003821 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 138119003822 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 138119003823 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 138119003824 putative substrate translocation pore; other site 138119003825 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 138119003826 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 138119003827 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 138119003828 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 138119003829 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 138119003830 catalytic residues [active] 138119003831 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 138119003832 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 138119003833 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119003834 dimerization interface [polypeptide binding]; other site 138119003835 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 138119003836 dimer interface [polypeptide binding]; other site 138119003837 phosphorylation site [posttranslational modification] 138119003838 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 138119003839 ATP binding site [chemical binding]; other site 138119003840 Mg2+ binding site [ion binding]; other site 138119003841 G-X-G motif; other site 138119003842 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003843 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 138119003844 active site 138119003845 phosphorylation site [posttranslational modification] 138119003846 intermolecular recognition site; other site 138119003847 dimerization interface [polypeptide binding]; other site 138119003848 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 138119003849 DNA binding site [nucleotide binding] 138119003850 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 138119003851 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 138119003852 ligand binding site [chemical binding]; other site 138119003853 active site 138119003854 UGI interface [polypeptide binding]; other site 138119003855 catalytic site [active] 138119003856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119003857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119003858 metal binding site [ion binding]; metal-binding site 138119003859 active site 138119003860 I-site; other site 138119003861 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119003862 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 138119003863 active site 138119003864 8-oxo-dGMP binding site [chemical binding]; other site 138119003865 nudix motif; other site 138119003866 metal binding site [ion binding]; metal-binding site 138119003867 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 138119003868 EamA-like transporter family; Region: EamA; pfam00892 138119003869 Rubrerythrin [Energy production and conversion]; Region: COG1592 138119003870 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 138119003871 binuclear metal center [ion binding]; other site 138119003872 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 138119003873 iron binding site [ion binding]; other site 138119003874 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 138119003875 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138119003876 substrate binding pocket [chemical binding]; other site 138119003877 membrane-bound complex binding site; other site 138119003878 hinge residues; other site 138119003879 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 138119003880 dimer interface [polypeptide binding]; other site 138119003881 conserved gate region; other site 138119003882 putative PBP binding loops; other site 138119003883 ABC-ATPase subunit interface; other site 138119003884 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119003885 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119003886 Walker A/P-loop; other site 138119003887 ATP binding site [chemical binding]; other site 138119003888 Q-loop/lid; other site 138119003889 ABC transporter signature motif; other site 138119003890 Walker B; other site 138119003891 D-loop; other site 138119003892 H-loop/switch region; other site 138119003893 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119003894 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119003895 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 138119003896 Walker A/P-loop; other site 138119003897 ATP binding site [chemical binding]; other site 138119003898 Q-loop/lid; other site 138119003899 ABC transporter signature motif; other site 138119003900 Walker B; other site 138119003901 D-loop; other site 138119003902 H-loop/switch region; other site 138119003903 Predicted membrane protein [Function unknown]; Region: COG1971 138119003904 Domain of unknown function DUF; Region: DUF204; pfam02659 138119003905 Domain of unknown function DUF; Region: DUF204; pfam02659 138119003906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119003907 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 138119003908 active site 138119003909 phosphorylation site [posttranslational modification] 138119003910 intermolecular recognition site; other site 138119003911 dimerization interface [polypeptide binding]; other site 138119003912 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 138119003913 DNA binding site [nucleotide binding] 138119003914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119003915 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 138119003916 dimer interface [polypeptide binding]; other site 138119003917 phosphorylation site [posttranslational modification] 138119003918 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 138119003919 ATP binding site [chemical binding]; other site 138119003920 Mg2+ binding site [ion binding]; other site 138119003921 G-X-G motif; other site 138119003922 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 138119003923 Predicted flavoprotein [General function prediction only]; Region: COG0431 138119003924 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 138119003925 Uncharacterized conserved protein [Function unknown]; Region: COG1633 138119003926 diiron binding motif [ion binding]; other site 138119003927 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 138119003928 putative metal binding residues [ion binding]; other site 138119003929 signature motif; other site 138119003930 dimer interface [polypeptide binding]; other site 138119003931 active site 138119003932 polyP binding site; other site 138119003933 substrate binding site [chemical binding]; other site 138119003934 acceptor-phosphate pocket; other site 138119003935 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 138119003936 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 138119003937 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 138119003938 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 138119003939 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 138119003940 dimer interface [polypeptide binding]; other site 138119003941 conserved gate region; other site 138119003942 putative PBP binding loops; other site 138119003943 ABC-ATPase subunit interface; other site 138119003944 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 138119003945 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 138119003946 Walker A/P-loop; other site 138119003947 ATP binding site [chemical binding]; other site 138119003948 Q-loop/lid; other site 138119003949 ABC transporter signature motif; other site 138119003950 Walker B; other site 138119003951 D-loop; other site 138119003952 H-loop/switch region; other site 138119003953 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119003954 aspartate aminotransferase; Provisional; Region: PRK06836 138119003955 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 138119003956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119003957 homodimer interface [polypeptide binding]; other site 138119003958 catalytic residue [active] 138119003959 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003960 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003961 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003962 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 138119003963 PAS fold; Region: PAS; pfam00989 138119003964 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119003965 putative active site [active] 138119003966 heme pocket [chemical binding]; other site 138119003967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119003968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119003969 metal binding site [ion binding]; metal-binding site 138119003970 active site 138119003971 I-site; other site 138119003972 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119003973 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119003974 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119003975 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 138119003976 active site 138119003977 NTP binding site [chemical binding]; other site 138119003978 metal binding triad [ion binding]; metal-binding site 138119003979 antibiotic binding site [chemical binding]; other site 138119003980 Predicted permeases [General function prediction only]; Region: RarD; COG2962 138119003981 EamA-like transporter family; Region: EamA; cl17759 138119003982 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 138119003983 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 138119003984 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 138119003985 GIY-YIG motif/motif A; other site 138119003986 active site 138119003987 catalytic site [active] 138119003988 putative DNA binding site [nucleotide binding]; other site 138119003989 metal binding site [ion binding]; metal-binding site 138119003990 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 138119003991 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 138119003992 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119003993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119003994 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 138119003995 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003996 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 138119003997 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003998 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119003999 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 138119004000 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 138119004001 active site 138119004002 metal binding site [ion binding]; metal-binding site 138119004003 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 138119004004 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 138119004005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119004006 DNA-binding site [nucleotide binding]; DNA binding site 138119004007 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 138119004008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119004009 homodimer interface [polypeptide binding]; other site 138119004010 catalytic residue [active] 138119004011 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 138119004012 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 138119004013 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 138119004014 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119004015 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119004016 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004017 molybdopterin cofactor binding site; other site 138119004018 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119004019 molybdopterin cofactor binding site; other site 138119004020 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004021 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119004022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 138119004023 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 138119004024 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 138119004025 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119004026 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004027 FMN-binding domain; Region: FMN_bind; pfam04205 138119004028 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119004029 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119004030 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119004031 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004032 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004033 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119004034 molybdopterin cofactor binding site; other site 138119004035 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119004036 molybdopterin cofactor binding site; other site 138119004037 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119004038 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004039 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004040 molybdopterin cofactor binding site; other site 138119004041 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119004042 molybdopterin cofactor binding site; other site 138119004043 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119004044 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119004045 Response regulator receiver domain; Region: Response_reg; pfam00072 138119004046 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 138119004047 active site 138119004048 phosphorylation site [posttranslational modification] 138119004049 intermolecular recognition site; other site 138119004050 dimerization interface [polypeptide binding]; other site 138119004051 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119004052 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 138119004053 synthetase active site [active] 138119004054 NTP binding site [chemical binding]; other site 138119004055 metal binding site [ion binding]; metal-binding site 138119004056 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119004057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119004058 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119004059 Walker A/P-loop; other site 138119004060 ATP binding site [chemical binding]; other site 138119004061 Q-loop/lid; other site 138119004062 ABC transporter signature motif; other site 138119004063 Walker B; other site 138119004064 D-loop; other site 138119004065 H-loop/switch region; other site 138119004066 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119004067 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119004068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119004069 Walker A/P-loop; other site 138119004070 ATP binding site [chemical binding]; other site 138119004071 Q-loop/lid; other site 138119004072 ABC transporter signature motif; other site 138119004073 Walker B; other site 138119004074 D-loop; other site 138119004075 H-loop/switch region; other site 138119004076 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119004077 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 138119004078 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 138119004079 binding surface 138119004080 TPR motif; other site 138119004081 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 138119004082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119004083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004084 Coenzyme A binding pocket [chemical binding]; other site 138119004085 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119004086 putative [Fe4-S4] binding site [ion binding]; other site 138119004087 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004088 putative molybdopterin cofactor binding site [chemical binding]; other site 138119004089 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119004090 putative molybdopterin cofactor binding site; other site 138119004091 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119004092 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119004093 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119004094 substrate binding pocket [chemical binding]; other site 138119004095 dimer interface [polypeptide binding]; other site 138119004096 inhibitor binding site; inhibition site 138119004097 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119004098 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 138119004099 B12 binding site [chemical binding]; other site 138119004100 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 138119004101 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 138119004102 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119004103 putative substrate translocation pore; other site 138119004104 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 138119004105 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 138119004106 PAS domain; Region: PAS; smart00091 138119004107 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 138119004108 Walker A motif; other site 138119004109 ATP binding site [chemical binding]; other site 138119004110 Walker B motif; other site 138119004111 arginine finger; other site 138119004112 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119004113 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004114 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119004115 putative [Fe4-S4] binding site [ion binding]; other site 138119004116 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004117 putative molybdopterin cofactor binding site [chemical binding]; other site 138119004118 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004119 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119004120 putative molybdopterin cofactor binding site; other site 138119004121 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119004122 putative [Fe4-S4] binding site [ion binding]; other site 138119004123 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004124 putative molybdopterin cofactor binding site [chemical binding]; other site 138119004125 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004126 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119004127 putative molybdopterin cofactor binding site; other site 138119004128 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004129 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 138119004130 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 138119004131 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119004132 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 138119004133 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119004134 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 138119004135 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 138119004136 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 138119004137 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 138119004138 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 138119004139 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119004140 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119004141 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119004142 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 138119004143 S-adenosylmethionine binding site [chemical binding]; other site 138119004144 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 138119004145 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 138119004146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119004147 catalytic residue [active] 138119004148 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 138119004149 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 138119004150 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 138119004151 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 138119004152 active site 138119004153 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 138119004154 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 138119004155 putative lipid kinase; Reviewed; Region: PRK13059 138119004156 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 138119004157 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 138119004158 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 138119004159 active site 138119004160 NTP binding site [chemical binding]; other site 138119004161 metal binding triad [ion binding]; metal-binding site 138119004162 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 138119004163 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 138119004164 Rubredoxin [Energy production and conversion]; Region: COG1773 138119004165 iron binding site [ion binding]; other site 138119004166 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 138119004167 epoxyqueuosine reductase; Region: TIGR00276 138119004168 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 138119004169 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 138119004170 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119004171 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 138119004172 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 138119004173 Peptidase_C39 like family; Region: DUF3335; pfam11814 138119004174 DinB superfamily; Region: DinB_2; pfam12867 138119004175 hypothetical protein; Validated; Region: PRK07682 138119004176 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 138119004177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119004178 homodimer interface [polypeptide binding]; other site 138119004179 catalytic residue [active] 138119004180 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 138119004181 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 138119004182 AsnC family; Region: AsnC_trans_reg; pfam01037 138119004183 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119004184 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119004185 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119004186 Integrase core domain; Region: rve; pfam00665 138119004187 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 138119004188 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 138119004189 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 138119004190 Mg++ binding site [ion binding]; other site 138119004191 putative catalytic motif [active] 138119004192 substrate binding site [chemical binding]; other site 138119004193 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 138119004194 metal-dependent hydrolase; Provisional; Region: PRK00685 138119004195 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 138119004196 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 138119004197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119004198 DNA-binding site [nucleotide binding]; DNA binding site 138119004199 DRTGG domain; Region: DRTGG; pfam07085 138119004200 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 138119004201 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 138119004202 active site 2 [active] 138119004203 active site 1 [active] 138119004204 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 138119004205 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 138119004206 active site 138119004207 PHP Thumb interface [polypeptide binding]; other site 138119004208 metal binding site [ion binding]; metal-binding site 138119004209 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 138119004210 generic binding surface II; other site 138119004211 generic binding surface I; other site 138119004212 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 138119004213 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 138119004214 active site 138119004215 (T/H)XGH motif; other site 138119004216 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 138119004217 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 138119004218 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 138119004219 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 138119004220 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 138119004221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119004222 Transposase; Region: HTH_Tnp_1; pfam01527 138119004223 putative transposase OrfB; Reviewed; Region: PHA02517 138119004224 HTH-like domain; Region: HTH_21; pfam13276 138119004225 Integrase core domain; Region: rve; pfam00665 138119004226 Integrase core domain; Region: rve_3; pfam13683 138119004227 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 138119004228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119004229 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 138119004230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119004231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119004232 Histidine kinase; Region: His_kinase; pfam06580 138119004233 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 138119004234 ATP binding site [chemical binding]; other site 138119004235 Mg2+ binding site [ion binding]; other site 138119004236 G-X-G motif; other site 138119004237 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119004238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119004239 Walker A/P-loop; other site 138119004240 ATP binding site [chemical binding]; other site 138119004241 Q-loop/lid; other site 138119004242 ABC transporter signature motif; other site 138119004243 Walker B; other site 138119004244 D-loop; other site 138119004245 H-loop/switch region; other site 138119004246 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119004247 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119004248 FtsX-like permease family; Region: FtsX; pfam02687 138119004249 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 138119004250 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119004251 FtsX-like permease family; Region: FtsX; pfam02687 138119004252 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119004253 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119004254 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119004255 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119004256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119004257 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119004258 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119004259 metal binding site [ion binding]; metal-binding site 138119004260 active site 138119004261 I-site; other site 138119004262 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119004263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004264 Coenzyme A binding pocket [chemical binding]; other site 138119004265 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 138119004266 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 138119004267 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 138119004268 substrate binding site [chemical binding]; other site 138119004269 tetramer interface [polypeptide binding]; other site 138119004270 catalytic residue [active] 138119004271 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119004272 MarR family; Region: MarR; pfam01047 138119004273 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 138119004274 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119004275 putative substrate translocation pore; other site 138119004276 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 138119004277 homotrimer interaction site [polypeptide binding]; other site 138119004278 putative active site [active] 138119004279 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119004280 Zn2+ binding site [ion binding]; other site 138119004281 Mg2+ binding site [ion binding]; other site 138119004282 Putative zinc-finger; Region: zf-HC2; pfam13490 138119004283 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 138119004284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119004285 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 138119004286 DNA binding residues [nucleotide binding] 138119004287 DNA polymerase I; Provisional; Region: PRK05755 138119004288 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 138119004289 active site 138119004290 metal binding site 1 [ion binding]; metal-binding site 138119004291 putative 5' ssDNA interaction site; other site 138119004292 metal binding site 3; metal-binding site 138119004293 metal binding site 2 [ion binding]; metal-binding site 138119004294 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 138119004295 putative DNA binding site [nucleotide binding]; other site 138119004296 putative metal binding site [ion binding]; other site 138119004297 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 138119004298 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 138119004299 active site 138119004300 DNA binding site [nucleotide binding] 138119004301 catalytic site [active] 138119004302 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 138119004303 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 138119004304 DNA binding site [nucleotide binding] 138119004305 catalytic residue [active] 138119004306 H2TH interface [polypeptide binding]; other site 138119004307 putative catalytic residues [active] 138119004308 turnover-facilitating residue; other site 138119004309 intercalation triad [nucleotide binding]; other site 138119004310 8OG recognition residue [nucleotide binding]; other site 138119004311 putative reading head residues; other site 138119004312 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 138119004313 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 138119004314 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138119004315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119004316 Walker A/P-loop; other site 138119004317 ATP binding site [chemical binding]; other site 138119004318 Q-loop/lid; other site 138119004319 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119004320 ABC transporter signature motif; other site 138119004321 Walker B; other site 138119004322 D-loop; other site 138119004323 ABC transporter; Region: ABC_tran_2; pfam12848 138119004324 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119004325 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 138119004326 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 138119004327 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 138119004328 CoA-binding site [chemical binding]; other site 138119004329 ATP-binding [chemical binding]; other site 138119004330 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 138119004331 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 138119004332 N-acetyl-D-glucosamine binding site [chemical binding]; other site 138119004333 catalytic residue [active] 138119004334 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119004335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119004336 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119004337 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 138119004338 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 138119004339 active site pocket [active] 138119004340 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 138119004341 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119004342 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119004343 FtsX-like permease family; Region: FtsX; pfam02687 138119004344 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119004345 Walker A/P-loop; other site 138119004346 ATP binding site [chemical binding]; other site 138119004347 Q-loop/lid; other site 138119004348 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119004349 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119004350 Walker A/P-loop; other site 138119004351 ATP binding site [chemical binding]; other site 138119004352 Q-loop/lid; other site 138119004353 ABC transporter signature motif; other site 138119004354 Walker B; other site 138119004355 D-loop; other site 138119004356 H-loop/switch region; other site 138119004357 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 138119004358 substrate binding pocket [chemical binding]; other site 138119004359 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119004360 membrane-bound complex binding site; other site 138119004361 hinge residues; other site 138119004362 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119004363 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 138119004364 dimer interface [polypeptide binding]; other site 138119004365 conserved gate region; other site 138119004366 putative PBP binding loops; other site 138119004367 ABC-ATPase subunit interface; other site 138119004368 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 138119004369 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 138119004370 dimer interface [polypeptide binding]; other site 138119004371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119004372 catalytic residue [active] 138119004373 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 138119004374 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 138119004375 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 138119004376 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 138119004377 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 138119004378 motif II; other site 138119004379 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 138119004380 classical (c) SDRs; Region: SDR_c; cd05233 138119004381 NAD(P) binding site [chemical binding]; other site 138119004382 active site 138119004383 homoserine kinase; Provisional; Region: PRK01212 138119004384 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 138119004385 homoserine dehydrogenase; Provisional; Region: PRK06349 138119004386 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 138119004387 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 138119004388 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 138119004389 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 138119004390 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 138119004391 homodimer interface [polypeptide binding]; other site 138119004392 substrate-cofactor binding pocket; other site 138119004393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119004394 catalytic residue [active] 138119004395 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 138119004396 6-phosphogluconate dehydratase; Region: edd; TIGR01196 138119004397 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 138119004398 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119004399 PYR/PP interface [polypeptide binding]; other site 138119004400 dimer interface [polypeptide binding]; other site 138119004401 TPP binding site [chemical binding]; other site 138119004402 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119004403 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 138119004404 TPP-binding site [chemical binding]; other site 138119004405 dimer interface [polypeptide binding]; other site 138119004406 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 138119004407 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 138119004408 putative valine binding site [chemical binding]; other site 138119004409 dimer interface [polypeptide binding]; other site 138119004410 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 138119004411 ketol-acid reductoisomerase; Provisional; Region: PRK05479 138119004412 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 138119004413 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 138119004414 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 138119004415 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 138119004416 substrate binding site [chemical binding]; other site 138119004417 ligand binding site [chemical binding]; other site 138119004418 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 138119004419 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 138119004420 substrate binding site [chemical binding]; other site 138119004421 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 138119004422 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 138119004423 tartrate dehydrogenase; Region: TTC; TIGR02089 138119004424 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 138119004425 Transcriptional regulator PadR-like family; Region: PadR; cl17335 138119004426 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 138119004427 HTH domain; Region: HTH_11; pfam08279 138119004428 WYL domain; Region: WYL; pfam13280 138119004429 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 138119004430 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 138119004431 active site 138119004432 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 138119004433 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119004434 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 138119004435 sequence-specific DNA binding site [nucleotide binding]; other site 138119004436 salt bridge; other site 138119004437 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 138119004438 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119004439 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119004440 Walker A/P-loop; other site 138119004441 ATP binding site [chemical binding]; other site 138119004442 Q-loop/lid; other site 138119004443 ABC transporter signature motif; other site 138119004444 Walker B; other site 138119004445 D-loop; other site 138119004446 H-loop/switch region; other site 138119004447 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 138119004448 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 138119004449 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 138119004450 ATP binding site [chemical binding]; other site 138119004451 putative Mg++ binding site [ion binding]; other site 138119004452 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 138119004453 nucleotide binding region [chemical binding]; other site 138119004454 ATP-binding site [chemical binding]; other site 138119004455 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 138119004456 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 138119004457 gamma-glutamyl kinase; Provisional; Region: PRK05429 138119004458 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 138119004459 nucleotide binding site [chemical binding]; other site 138119004460 homotetrameric interface [polypeptide binding]; other site 138119004461 putative phosphate binding site [ion binding]; other site 138119004462 putative allosteric binding site; other site 138119004463 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 138119004464 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 138119004465 putative catalytic cysteine [active] 138119004466 Putative amidase domain; Region: Amidase_6; pfam12671 138119004467 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119004468 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119004469 Transposase IS200 like; Region: Y1_Tnp; pfam01797 138119004470 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 138119004471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119004472 putative active site [active] 138119004473 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 138119004474 Walker A motif; other site 138119004475 ATP binding site [chemical binding]; other site 138119004476 Walker B motif; other site 138119004477 arginine finger; other site 138119004478 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119004479 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119004480 putative [Fe4-S4] binding site [ion binding]; other site 138119004481 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004482 putative molybdopterin cofactor binding site [chemical binding]; other site 138119004483 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004484 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119004485 putative molybdopterin cofactor binding site; other site 138119004486 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119004487 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119004488 L-lactate permease; Region: Lactate_perm; cl00701 138119004489 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 138119004490 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 138119004491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004492 Coenzyme A binding pocket [chemical binding]; other site 138119004493 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 138119004494 D-galactonate transporter; Region: 2A0114; TIGR00893 138119004495 putative substrate translocation pore; other site 138119004496 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 138119004497 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 138119004498 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 138119004499 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 138119004500 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 138119004501 substrate binding site [chemical binding]; other site 138119004502 multimerization interface [polypeptide binding]; other site 138119004503 ATP binding site [chemical binding]; other site 138119004504 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 138119004505 thiamine phosphate binding site [chemical binding]; other site 138119004506 active site 138119004507 pyrophosphate binding site [ion binding]; other site 138119004508 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 138119004509 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 138119004510 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 138119004511 dimer interface [polypeptide binding]; other site 138119004512 substrate binding site [chemical binding]; other site 138119004513 ATP binding site [chemical binding]; other site 138119004514 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119004515 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 138119004516 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119004517 DNA binding residues [nucleotide binding] 138119004518 dimer interface [polypeptide binding]; other site 138119004519 AAA domain; Region: AAA_17; cl17253 138119004520 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 138119004521 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119004522 putative substrate translocation pore; other site 138119004523 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119004524 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 138119004525 catalytic site [active] 138119004526 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119004527 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119004528 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 138119004529 Walker A/P-loop; other site 138119004530 ATP binding site [chemical binding]; other site 138119004531 Q-loop/lid; other site 138119004532 ABC transporter signature motif; other site 138119004533 Walker B; other site 138119004534 D-loop; other site 138119004535 H-loop/switch region; other site 138119004536 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 138119004537 phosphofructokinase; Region: PFK_mixed; TIGR02483 138119004538 active site 138119004539 ADP/pyrophosphate binding site [chemical binding]; other site 138119004540 dimerization interface [polypeptide binding]; other site 138119004541 allosteric effector site; other site 138119004542 fructose-1,6-bisphosphate binding site; other site 138119004543 Protein of unknown function (DUF456); Region: DUF456; pfam04306 138119004544 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119004545 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004546 Coenzyme A binding pocket [chemical binding]; other site 138119004547 putative acetyltransferase; Provisional; Region: PRK03624 138119004548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004549 Coenzyme A binding pocket [chemical binding]; other site 138119004550 hypothetical protein; Provisional; Region: PRK10281 138119004551 chaperone protein DnaJ; Provisional; Region: PRK14299 138119004552 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 138119004553 HSP70 interaction site [polypeptide binding]; other site 138119004554 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 138119004555 substrate binding site [polypeptide binding]; other site 138119004556 dimer interface [polypeptide binding]; other site 138119004557 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 138119004558 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 138119004559 Ligand binding site; other site 138119004560 Putative Catalytic site; other site 138119004561 DXD motif; other site 138119004562 GtrA-like protein; Region: GtrA; pfam04138 138119004563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119004564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119004565 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 138119004566 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119004567 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119004568 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 138119004569 putative active site [active] 138119004570 putative metal binding residues [ion binding]; other site 138119004571 signature motif; other site 138119004572 putative triphosphate binding site [ion binding]; other site 138119004573 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119004574 Zn2+ binding site [ion binding]; other site 138119004575 Mg2+ binding site [ion binding]; other site 138119004576 Flavin Reductases; Region: FlaRed; cl00801 138119004577 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 138119004578 hypothetical protein; Reviewed; Region: PRK09588 138119004579 Predicted transcriptional regulators [Transcription]; Region: COG1725 138119004580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119004581 DNA-binding site [nucleotide binding]; DNA binding site 138119004582 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 138119004583 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119004584 Walker A/P-loop; other site 138119004585 ATP binding site [chemical binding]; other site 138119004586 Q-loop/lid; other site 138119004587 ABC transporter signature motif; other site 138119004588 Walker B; other site 138119004589 D-loop; other site 138119004590 H-loop/switch region; other site 138119004591 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 138119004592 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119004593 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119004594 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 138119004595 dimer interface [polypeptide binding]; other site 138119004596 conserved gate region; other site 138119004597 putative PBP binding loops; other site 138119004598 ABC-ATPase subunit interface; other site 138119004599 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119004600 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 138119004601 dimer interface [polypeptide binding]; other site 138119004602 conserved gate region; other site 138119004603 ABC-ATPase subunit interface; other site 138119004604 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 138119004605 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119004606 Walker A/P-loop; other site 138119004607 ATP binding site [chemical binding]; other site 138119004608 Q-loop/lid; other site 138119004609 ABC transporter signature motif; other site 138119004610 Walker B; other site 138119004611 D-loop; other site 138119004612 H-loop/switch region; other site 138119004613 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119004614 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119004615 Walker A/P-loop; other site 138119004616 ATP binding site [chemical binding]; other site 138119004617 Q-loop/lid; other site 138119004618 ABC transporter signature motif; other site 138119004619 Walker B; other site 138119004620 D-loop; other site 138119004621 H-loop/switch region; other site 138119004622 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119004623 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 138119004624 Walker A/P-loop; other site 138119004625 ATP binding site [chemical binding]; other site 138119004626 Q-loop/lid; other site 138119004627 ABC transporter signature motif; other site 138119004628 Walker B; other site 138119004629 D-loop; other site 138119004630 H-loop/switch region; other site 138119004631 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 138119004632 catalytic residues [active] 138119004633 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 138119004634 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119004635 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 138119004636 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119004637 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 138119004638 putative [Fe4-S4] binding site [ion binding]; other site 138119004639 putative molybdopterin cofactor binding site [chemical binding]; other site 138119004640 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119004641 putative molybdopterin cofactor binding site; other site 138119004642 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119004643 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119004644 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 138119004645 short chain dehydrogenase; Provisional; Region: PRK06701 138119004646 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 138119004647 NAD binding site [chemical binding]; other site 138119004648 metal binding site [ion binding]; metal-binding site 138119004649 active site 138119004650 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119004651 MarR family; Region: MarR; pfam01047 138119004652 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 138119004653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119004654 putative substrate translocation pore; other site 138119004655 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119004656 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 138119004657 catalytic residues [active] 138119004658 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 138119004659 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 138119004660 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119004661 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 138119004662 FOG: CBS domain [General function prediction only]; Region: COG0517 138119004663 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 138119004664 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 138119004665 FMN binding site [chemical binding]; other site 138119004666 dimer interface [polypeptide binding]; other site 138119004667 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 138119004668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119004669 Walker A/P-loop; other site 138119004670 ATP binding site [chemical binding]; other site 138119004671 Q-loop/lid; other site 138119004672 ABC transporter signature motif; other site 138119004673 Walker B; other site 138119004674 D-loop; other site 138119004675 H-loop/switch region; other site 138119004676 TOBE domain; Region: TOBE_2; pfam08402 138119004677 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 138119004678 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 138119004679 dimer interface [polypeptide binding]; other site 138119004680 conserved gate region; other site 138119004681 putative PBP binding loops; other site 138119004682 ABC-ATPase subunit interface; other site 138119004683 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 138119004684 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 138119004685 dimer interface [polypeptide binding]; other site 138119004686 conserved gate region; other site 138119004687 putative PBP binding loops; other site 138119004688 ABC-ATPase subunit interface; other site 138119004689 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 138119004690 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 138119004691 hypothetical protein; Provisional; Region: PRK11770 138119004692 Domain of unknown function (DUF307); Region: DUF307; pfam03733 138119004693 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 138119004694 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 138119004695 active site 138119004696 catalytic tetrad [active] 138119004697 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 138119004698 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 138119004699 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 138119004700 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 138119004701 Nitroreductase family; Region: Nitroreductase; pfam00881 138119004702 dimer interface [polypeptide binding]; other site 138119004703 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 138119004704 dimer interface [polypeptide binding]; other site 138119004705 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 138119004706 dimerization interface [polypeptide binding]; other site 138119004707 putative DNA binding site [nucleotide binding]; other site 138119004708 putative Zn2+ binding site [ion binding]; other site 138119004709 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 138119004710 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 138119004711 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119004712 G5 domain; Region: G5; pfam07501 138119004713 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119004714 NlpC/P60 family; Region: NLPC_P60; pfam00877 138119004715 Nuclease-related domain; Region: NERD; pfam08378 138119004716 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 138119004717 EamA-like transporter family; Region: EamA; pfam00892 138119004718 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119004719 EamA-like transporter family; Region: EamA; pfam00892 138119004720 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 138119004721 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 138119004722 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 138119004723 CoA binding domain; Region: CoA_binding_2; pfam13380 138119004724 cobalt transport protein CbiM; Validated; Region: PRK08319 138119004725 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 138119004726 cobalt transport protein CbiN; Provisional; Region: PRK02898 138119004727 Cobalt transport protein; Region: CbiQ; cl00463 138119004728 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 138119004729 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119004730 Walker A/P-loop; other site 138119004731 ATP binding site [chemical binding]; other site 138119004732 Q-loop/lid; other site 138119004733 ABC transporter signature motif; other site 138119004734 Walker B; other site 138119004735 D-loop; other site 138119004736 H-loop/switch region; other site 138119004737 RelB antitoxin; Region: RelB; cl01171 138119004738 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119004739 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 138119004740 Walker A/P-loop; other site 138119004741 ATP binding site [chemical binding]; other site 138119004742 Q-loop/lid; other site 138119004743 ABC transporter signature motif; other site 138119004744 Walker B; other site 138119004745 D-loop; other site 138119004746 H-loop/switch region; other site 138119004747 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119004748 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119004749 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 138119004750 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119004751 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 138119004752 dimer interface [polypeptide binding]; other site 138119004753 conserved gate region; other site 138119004754 putative PBP binding loops; other site 138119004755 ABC-ATPase subunit interface; other site 138119004756 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119004757 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119004758 Walker A/P-loop; other site 138119004759 ATP binding site [chemical binding]; other site 138119004760 Q-loop/lid; other site 138119004761 ABC transporter signature motif; other site 138119004762 Walker B; other site 138119004763 D-loop; other site 138119004764 H-loop/switch region; other site 138119004765 Uncharacterized conserved protein [Function unknown]; Region: COG0398 138119004766 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119004767 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 138119004768 S-adenosylmethionine binding site [chemical binding]; other site 138119004769 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 138119004770 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 138119004771 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 138119004772 intersubunit interface [polypeptide binding]; other site 138119004773 active site 138119004774 zinc binding site [ion binding]; other site 138119004775 Na+ binding site [ion binding]; other site 138119004776 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119004777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119004778 DNA-binding site [nucleotide binding]; DNA binding site 138119004779 UTRA domain; Region: UTRA; pfam07702 138119004780 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 138119004781 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 138119004782 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 138119004783 hexamer (dimer of trimers) interface [polypeptide binding]; other site 138119004784 trimer interface [polypeptide binding]; other site 138119004785 substrate binding site [chemical binding]; other site 138119004786 Mn binding site [ion binding]; other site 138119004787 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119004788 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119004789 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 138119004790 active site 138119004791 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 138119004792 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 138119004793 Walker A/P-loop; other site 138119004794 ATP binding site [chemical binding]; other site 138119004795 Q-loop/lid; other site 138119004796 ABC transporter signature motif; other site 138119004797 Walker B; other site 138119004798 D-loop; other site 138119004799 H-loop/switch region; other site 138119004800 TOBE domain; Region: TOBE_2; pfam08402 138119004801 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 138119004802 dimer interface [polypeptide binding]; other site 138119004803 conserved gate region; other site 138119004804 putative PBP binding loops; other site 138119004805 ABC-ATPase subunit interface; other site 138119004806 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 138119004807 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 138119004808 dimer interface [polypeptide binding]; other site 138119004809 conserved gate region; other site 138119004810 putative PBP binding loops; other site 138119004811 ABC-ATPase subunit interface; other site 138119004812 6-phosphofructokinase; Provisional; Region: PRK14072 138119004813 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 138119004814 active site 138119004815 ADP/pyrophosphate binding site [chemical binding]; other site 138119004816 dimerization interface [polypeptide binding]; other site 138119004817 allosteric effector site; other site 138119004818 fructose-1,6-bisphosphate binding site; other site 138119004819 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 138119004820 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 138119004821 tetramerization interface [polypeptide binding]; other site 138119004822 NAD(P) binding site [chemical binding]; other site 138119004823 catalytic residues [active] 138119004824 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119004825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119004826 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119004827 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 138119004828 substrate binding site [chemical binding]; other site 138119004829 catalytic triad [active] 138119004830 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 138119004831 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 138119004832 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 138119004833 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 138119004834 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 138119004835 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 138119004836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119004837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119004838 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119004839 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119004840 substrate binding pocket [chemical binding]; other site 138119004841 dimer interface [polypeptide binding]; other site 138119004842 inhibitor binding site; inhibition site 138119004843 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 138119004844 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119004845 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119004846 B12 binding site [chemical binding]; other site 138119004847 cobalt ligand [ion binding]; other site 138119004848 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 138119004849 MgtC family; Region: MgtC; pfam02308 138119004850 Protein of unknown function (DUF2695); Region: DUF2695; pfam10905 138119004851 methionine sulfoxide reductase A; Provisional; Region: PRK14054 138119004852 methionine sulfoxide reductase B; Provisional; Region: PRK00222 138119004853 SelR domain; Region: SelR; pfam01641 138119004854 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 138119004855 classical (c) SDRs; Region: SDR_c; cd05233 138119004856 NAD(P) binding site [chemical binding]; other site 138119004857 active site 138119004858 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119004859 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119004860 molybdopterin cofactor binding site; other site 138119004861 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 138119004862 putative molybdopterin cofactor binding site; other site 138119004863 Rrf2 family protein; Region: rrf2_super; TIGR00738 138119004864 Transcriptional regulator; Region: Rrf2; pfam02082 138119004865 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119004866 MarR family; Region: MarR; pfam01047 138119004867 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 138119004868 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 138119004869 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 138119004870 putative metal binding site [ion binding]; other site 138119004871 Uncharacterized conserved protein [Function unknown]; Region: COG1432 138119004872 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 138119004873 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 138119004874 dimer interface [polypeptide binding]; other site 138119004875 pyridoxal binding site [chemical binding]; other site 138119004876 ATP binding site [chemical binding]; other site 138119004877 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 138119004878 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 138119004879 FeS/SAM binding site; other site 138119004880 serine/threonine transporter SstT; Provisional; Region: PRK13628 138119004881 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 138119004882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119004883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119004884 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119004885 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119004886 Walker A/P-loop; other site 138119004887 ATP binding site [chemical binding]; other site 138119004888 Q-loop/lid; other site 138119004889 ABC transporter signature motif; other site 138119004890 Walker B; other site 138119004891 D-loop; other site 138119004892 H-loop/switch region; other site 138119004893 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119004894 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 138119004895 dimer interface [polypeptide binding]; other site 138119004896 conserved gate region; other site 138119004897 putative PBP binding loops; other site 138119004898 ABC-ATPase subunit interface; other site 138119004899 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119004900 NMT1/THI5 like; Region: NMT1; pfam09084 138119004901 membrane-bound complex binding site; other site 138119004902 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 138119004903 active site clefts [active] 138119004904 zinc binding site [ion binding]; other site 138119004905 dimer interface [polypeptide binding]; other site 138119004906 RNA polymerase sigma factor; Provisional; Region: PRK12513 138119004907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119004908 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 138119004909 DNA binding residues [nucleotide binding] 138119004910 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119004911 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 138119004912 Walker A/P-loop; other site 138119004913 ATP binding site [chemical binding]; other site 138119004914 Q-loop/lid; other site 138119004915 ABC transporter signature motif; other site 138119004916 Walker B; other site 138119004917 D-loop; other site 138119004918 H-loop/switch region; other site 138119004919 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119004920 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 138119004921 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 138119004922 Uncharacterized conserved protein [Function unknown]; Region: COG2461 138119004923 Family of unknown function (DUF438); Region: DUF438; pfam04282 138119004924 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 138119004925 zinc transporter ZupT; Provisional; Region: PRK04201 138119004926 ZIP Zinc transporter; Region: Zip; pfam02535 138119004927 Predicted membrane protein [Function unknown]; Region: COG2323 138119004928 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 138119004929 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119004930 L-lactate permease; Region: Lactate_perm; cl00701 138119004931 Bacterial SH3 domain; Region: SH3_3; pfam08239 138119004932 Bacterial SH3 domain; Region: SH3_3; pfam08239 138119004933 Bacterial SH3 domain; Region: SH3_3; pfam08239 138119004934 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 138119004935 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 138119004936 active site 138119004937 metal binding site [ion binding]; metal-binding site 138119004938 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 138119004939 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 138119004940 ATP binding site [chemical binding]; other site 138119004941 Mg2+ binding site [ion binding]; other site 138119004942 G-X-G motif; other site 138119004943 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 138119004944 anchoring element; other site 138119004945 dimer interface [polypeptide binding]; other site 138119004946 ATP binding site [chemical binding]; other site 138119004947 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 138119004948 active site 138119004949 putative metal-binding site [ion binding]; other site 138119004950 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 138119004951 DNA gyrase subunit A; Validated; Region: PRK05560 138119004952 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 138119004953 CAP-like domain; other site 138119004954 active site 138119004955 primary dimer interface [polypeptide binding]; other site 138119004956 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119004957 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 138119004958 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 138119004959 S-adenosylmethionine binding site [chemical binding]; other site 138119004960 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119004961 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; cl00217 138119004962 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138119004963 hypothetical protein; Provisional; Region: PRK03881 138119004964 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 138119004965 AMMECR1; Region: AMMECR1; pfam01871 138119004966 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 138119004967 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 138119004968 FeS/SAM binding site; other site 138119004969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004970 Coenzyme A binding pocket [chemical binding]; other site 138119004971 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119004972 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119004973 NlpC/P60 family; Region: NLPC_P60; pfam00877 138119004974 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119004975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119004976 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 138119004977 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 138119004978 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119004979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119004980 Coenzyme A binding pocket [chemical binding]; other site 138119004981 Family description; Region: ACT_7; pfam13840 138119004982 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 138119004983 FOG: CBS domain [General function prediction only]; Region: COG0517 138119004984 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119004985 Nif-specific regulatory protein; Region: nifA; TIGR01817 138119004986 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119004987 putative active site [active] 138119004988 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 138119004989 Walker A motif; other site 138119004990 ATP binding site [chemical binding]; other site 138119004991 Walker B motif; other site 138119004992 arginine finger; other site 138119004993 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119004994 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 138119004995 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 138119004996 homodimer interface [polypeptide binding]; other site 138119004997 Walker A motif; other site 138119004998 ATP binding site [chemical binding]; other site 138119004999 hydroxycobalamin binding site [chemical binding]; other site 138119005000 Walker B motif; other site 138119005001 ArgK protein; Region: ArgK; pfam03308 138119005002 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 138119005003 Walker A; other site 138119005004 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 138119005005 GTP/Mg2+ binding site [chemical binding]; other site 138119005006 G4 box; other site 138119005007 G5 box; other site 138119005008 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 138119005009 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 138119005010 B12 binding site [chemical binding]; other site 138119005011 cobalt ligand [ion binding]; other site 138119005012 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 138119005013 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119005014 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119005015 putative acyltransferase; Provisional; Region: PRK05790 138119005016 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119005017 dimer interface [polypeptide binding]; other site 138119005018 active site 138119005019 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119005020 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 138119005021 FAD binding site [chemical binding]; other site 138119005022 homotetramer interface [polypeptide binding]; other site 138119005023 substrate binding pocket [chemical binding]; other site 138119005024 catalytic base [active] 138119005025 Coenzyme A transferase; Region: CoA_trans; smart00882 138119005026 Coenzyme A transferase; Region: CoA_trans; cl17247 138119005027 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 138119005028 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 138119005029 active site 138119005030 DNA binding site [nucleotide binding] 138119005031 Int/Topo IB signature motif; other site 138119005032 Allexivirus 40kDa protein; Region: Allexi_40kDa; pfam05549 138119005033 ActA Protein; Region: ActA; pfam05058 138119005034 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 138119005035 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119005036 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119005037 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119005038 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 138119005039 LexA repressor; Validated; Region: PRK00215 138119005040 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 138119005041 Catalytic site [active] 138119005042 CAAX protease self-immunity; Region: Abi; pfam02517 138119005043 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 138119005044 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 138119005045 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 138119005046 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 138119005047 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 138119005048 Catalytic site [active] 138119005049 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 138119005050 Aluminium resistance protein; Region: Alum_res; pfam06838 138119005051 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 138119005052 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 138119005053 HflX GTPase family; Region: HflX; cd01878 138119005054 G1 box; other site 138119005055 GTP/Mg2+ binding site [chemical binding]; other site 138119005056 Switch I region; other site 138119005057 G2 box; other site 138119005058 G3 box; other site 138119005059 Switch II region; other site 138119005060 G4 box; other site 138119005061 stage V sporulation protein K; Region: spore_V_K; TIGR02881 138119005062 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 138119005063 Walker A motif; other site 138119005064 ATP binding site [chemical binding]; other site 138119005065 Walker B motif; other site 138119005066 arginine finger; other site 138119005067 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 138119005068 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 138119005069 G1 box; other site 138119005070 putative GEF interaction site [polypeptide binding]; other site 138119005071 GTP/Mg2+ binding site [chemical binding]; other site 138119005072 Switch I region; other site 138119005073 G2 box; other site 138119005074 G3 box; other site 138119005075 Switch II region; other site 138119005076 G4 box; other site 138119005077 G5 box; other site 138119005078 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 138119005079 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 138119005080 bacterial Hfq-like; Region: Hfq; cd01716 138119005081 hexamer interface [polypeptide binding]; other site 138119005082 Sm1 motif; other site 138119005083 RNA binding site [nucleotide binding]; other site 138119005084 Sm2 motif; other site 138119005085 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 138119005086 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 138119005087 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 138119005088 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 138119005089 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 138119005090 ATP binding site [chemical binding]; other site 138119005091 Mg2+ binding site [ion binding]; other site 138119005092 G-X-G motif; other site 138119005093 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 138119005094 ATP binding site [chemical binding]; other site 138119005095 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 138119005096 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 138119005097 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 138119005098 active site 138119005099 Zn binding site [ion binding]; other site 138119005100 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 138119005101 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 138119005102 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 138119005103 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 138119005104 MutS domain I; Region: MutS_I; pfam01624 138119005105 MutS domain II; Region: MutS_II; pfam05188 138119005106 MutS domain III; Region: MutS_III; pfam05192 138119005107 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 138119005108 Walker A/P-loop; other site 138119005109 ATP binding site [chemical binding]; other site 138119005110 Q-loop/lid; other site 138119005111 ABC transporter signature motif; other site 138119005112 Walker B; other site 138119005113 D-loop; other site 138119005114 H-loop/switch region; other site 138119005115 Protein of unknown function (DUF964); Region: DUF964; pfam06133 138119005116 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 138119005117 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 138119005118 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 138119005119 FeS/SAM binding site; other site 138119005120 TRAM domain; Region: TRAM; pfam01938 138119005121 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 138119005122 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 138119005123 putative substrate-binding site; other site 138119005124 nickel binding site [ion binding]; other site 138119005125 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 138119005126 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 138119005127 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 138119005128 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 138119005129 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 138119005130 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 138119005131 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 138119005132 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119005133 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 138119005134 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119005135 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119005136 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 138119005137 active site 138119005138 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119005139 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 138119005140 S-adenosylmethionine binding site [chemical binding]; other site 138119005141 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119005142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119005143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119005144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 138119005145 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119005146 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119005147 G5 domain; Region: G5; pfam07501 138119005148 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119005149 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 138119005150 pyruvate kinase; Provisional; Region: PRK06354 138119005151 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 138119005152 domain interfaces; other site 138119005153 active site 138119005154 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 138119005155 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 138119005156 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 138119005157 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 138119005158 hypothetical protein; Provisional; Region: PRK06851 138119005159 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 138119005160 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119005161 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 138119005162 Walker A motif; other site 138119005163 ATP binding site [chemical binding]; other site 138119005164 Walker B motif; other site 138119005165 arginine finger; other site 138119005166 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 138119005167 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 138119005168 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119005169 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 138119005170 ligand binding site [chemical binding]; other site 138119005171 flexible hinge region; other site 138119005172 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 138119005173 putative switch regulator; other site 138119005174 non-specific DNA interactions [nucleotide binding]; other site 138119005175 DNA binding site [nucleotide binding] 138119005176 sequence specific DNA binding site [nucleotide binding]; other site 138119005177 putative cAMP binding site [chemical binding]; other site 138119005178 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119005179 4Fe-4S binding domain; Region: Fer4; cl02805 138119005180 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 138119005181 EamA-like transporter family; Region: EamA; pfam00892 138119005182 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 138119005183 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119005184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119005185 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 138119005186 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 138119005187 oligomer interface [polypeptide binding]; other site 138119005188 active site 138119005189 metal binding site [ion binding]; metal-binding site 138119005190 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 138119005191 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 138119005192 oligomer interface [polypeptide binding]; other site 138119005193 active site 138119005194 metal binding site [ion binding]; metal-binding site 138119005195 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 138119005196 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 138119005197 oligomer interface [polypeptide binding]; other site 138119005198 active site 138119005199 metal binding site [ion binding]; metal-binding site 138119005200 dipeptidase PepV; Reviewed; Region: PRK07318 138119005201 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 138119005202 active site 138119005203 metal binding site [ion binding]; metal-binding site 138119005204 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 138119005205 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 138119005206 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 138119005207 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 138119005208 Rhomboid family; Region: Rhomboid; pfam01694 138119005209 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 138119005210 oxidoreductase; Provisional; Region: PRK10015 138119005211 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119005212 4Fe-4S binding domain; Region: Fer4; pfam00037 138119005213 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119005214 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 138119005215 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119005216 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 138119005217 Ligand binding site [chemical binding]; other site 138119005218 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119005219 Uncharacterized conserved protein [Function unknown]; Region: COG1615 138119005220 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 138119005221 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 138119005222 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 138119005223 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 138119005224 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 138119005225 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 138119005226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119005227 hypothetical protein; Provisional; Region: PRK06921 138119005228 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 138119005229 Walker A motif; other site 138119005230 ATP binding site [chemical binding]; other site 138119005231 Walker B motif; other site 138119005232 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 138119005233 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 138119005234 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119005235 Zn2+ binding site [ion binding]; other site 138119005236 Mg2+ binding site [ion binding]; other site 138119005237 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 138119005238 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119005239 Beta-Casp domain; Region: Beta-Casp; smart01027 138119005240 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 138119005241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119005242 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 138119005243 active site 138119005244 phosphorylation site [posttranslational modification] 138119005245 intermolecular recognition site; other site 138119005246 dimerization interface [polypeptide binding]; other site 138119005247 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 138119005248 DNA binding residues [nucleotide binding] 138119005249 dimerization interface [polypeptide binding]; other site 138119005250 Sensor protein DegS; Region: DegS; pfam05384 138119005251 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119005252 Histidine kinase; Region: HisKA_3; pfam07730 138119005253 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 138119005254 ATP binding site [chemical binding]; other site 138119005255 Mg2+ binding site [ion binding]; other site 138119005256 G-X-G motif; other site 138119005257 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119005258 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119005259 substrate binding pocket [chemical binding]; other site 138119005260 inhibitor binding site; inhibition site 138119005261 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 138119005262 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 138119005263 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119005264 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 138119005265 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119005266 catalytic loop [active] 138119005267 iron binding site [ion binding]; other site 138119005268 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 138119005269 Putative Fe-S cluster; Region: FeS; pfam04060 138119005270 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 138119005271 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH)...; Region: ACS_2; cd01917 138119005272 CODH interaction site; other site 138119005273 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 138119005274 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 138119005275 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 138119005276 ACS interaction site; other site 138119005277 CODH interaction site; other site 138119005278 cubane metal cluster (B-cluster) [ion binding]; other site 138119005279 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 138119005280 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 138119005281 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 138119005282 P-loop; other site 138119005283 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119005284 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119005285 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119005286 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 138119005287 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 138119005288 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 138119005289 dimer interface [polypeptide binding]; other site 138119005290 conserved gate region; other site 138119005291 putative PBP binding loops; other site 138119005292 ABC-ATPase subunit interface; other site 138119005293 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 138119005294 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 138119005295 Walker A/P-loop; other site 138119005296 ATP binding site [chemical binding]; other site 138119005297 Q-loop/lid; other site 138119005298 ABC transporter signature motif; other site 138119005299 Walker B; other site 138119005300 D-loop; other site 138119005301 H-loop/switch region; other site 138119005302 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119005303 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 138119005304 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119005305 ligand binding site [chemical binding]; other site 138119005306 flexible hinge region; other site 138119005307 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 138119005308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119005309 Coenzyme A binding pocket [chemical binding]; other site 138119005310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119005311 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 138119005312 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 138119005313 catalytic motif [active] 138119005314 Zn binding site [ion binding]; other site 138119005315 RibD C-terminal domain; Region: RibD_C; cl17279 138119005316 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 138119005317 Lumazine binding domain; Region: Lum_binding; pfam00677 138119005318 Lumazine binding domain; Region: Lum_binding; pfam00677 138119005319 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 138119005320 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 138119005321 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 138119005322 dimerization interface [polypeptide binding]; other site 138119005323 active site 138119005324 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 138119005325 homopentamer interface [polypeptide binding]; other site 138119005326 active site 138119005327 RNA polymerase factor sigma-70; Validated; Region: PRK08295 138119005328 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119005329 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 138119005330 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 138119005331 Clp amino terminal domain; Region: Clp_N; pfam02861 138119005332 Clp amino terminal domain; Region: Clp_N; pfam02861 138119005333 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 138119005334 Walker A motif; other site 138119005335 ATP binding site [chemical binding]; other site 138119005336 Walker B motif; other site 138119005337 arginine finger; other site 138119005338 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 138119005339 Walker A motif; other site 138119005340 ATP binding site [chemical binding]; other site 138119005341 Walker B motif; other site 138119005342 arginine finger; other site 138119005343 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 138119005344 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 138119005345 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 138119005346 active site 138119005347 substrate binding site [chemical binding]; other site 138119005348 metal binding site [ion binding]; metal-binding site 138119005349 EDD domain protein, DegV family; Region: DegV; TIGR00762 138119005350 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 138119005351 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 138119005352 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 138119005353 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119005354 glyoxylate reductase; Reviewed; Region: PRK13243 138119005355 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 138119005356 dimerization interface [polypeptide binding]; other site 138119005357 ligand binding site [chemical binding]; other site 138119005358 NADP binding site [chemical binding]; other site 138119005359 catalytic site [active] 138119005360 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 138119005361 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 138119005362 DNA binding residues [nucleotide binding] 138119005363 dimer interface [polypeptide binding]; other site 138119005364 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 138119005365 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 138119005366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119005367 putative substrate translocation pore; other site 138119005368 AIPR protein; Region: AIPR; pfam10592 138119005369 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119005370 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119005371 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119005372 AIPR protein; Region: AIPR; pfam10592 138119005373 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119005374 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 138119005375 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 138119005376 zinc binding site [ion binding]; other site 138119005377 putative ligand binding site [chemical binding]; other site 138119005378 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119005379 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 138119005380 TM-ABC transporter signature motif; other site 138119005381 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 138119005382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119005383 Walker A/P-loop; other site 138119005384 ATP binding site [chemical binding]; other site 138119005385 Q-loop/lid; other site 138119005386 ABC transporter signature motif; other site 138119005387 Walker B; other site 138119005388 D-loop; other site 138119005389 H-loop/switch region; other site 138119005390 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 138119005391 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119005392 putative active site [active] 138119005393 putative NTP binding site [chemical binding]; other site 138119005394 putative nucleic acid binding site [nucleotide binding]; other site 138119005395 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 138119005396 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 138119005397 Part of AAA domain; Region: AAA_19; pfam13245 138119005398 Family description; Region: UvrD_C_2; pfam13538 138119005399 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 138119005400 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 138119005401 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 138119005402 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 138119005403 Uncharacterized conserved protein [Function unknown]; Region: COG1284 138119005404 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138119005405 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 138119005406 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 138119005407 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 138119005408 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119005409 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 138119005410 DNA binding residues [nucleotide binding] 138119005411 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 138119005412 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 138119005413 putative active site [active] 138119005414 catalytic site [active] 138119005415 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 138119005416 putative active site [active] 138119005417 catalytic site [active] 138119005418 Chromate transporter; Region: Chromate_transp; pfam02417 138119005419 Chromate transporter; Region: Chromate_transp; pfam02417 138119005420 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 138119005421 dinuclear metal binding motif [ion binding]; other site 138119005422 PspC domain; Region: PspC; pfam04024 138119005423 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 138119005424 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119005425 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119005426 Walker A/P-loop; other site 138119005427 ATP binding site [chemical binding]; other site 138119005428 Q-loop/lid; other site 138119005429 ABC transporter signature motif; other site 138119005430 Walker B; other site 138119005431 D-loop; other site 138119005432 H-loop/switch region; other site 138119005433 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119005434 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 138119005435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119005436 Walker A/P-loop; other site 138119005437 ATP binding site [chemical binding]; other site 138119005438 Q-loop/lid; other site 138119005439 ABC transporter signature motif; other site 138119005440 Walker B; other site 138119005441 D-loop; other site 138119005442 H-loop/switch region; other site 138119005443 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 138119005444 Predicted membrane protein [Function unknown]; Region: COG3326 138119005445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119005446 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119005447 Coenzyme A binding pocket [chemical binding]; other site 138119005448 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 138119005449 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119005450 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119005451 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 138119005452 active site 138119005453 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 138119005454 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 138119005455 substrate binding site [chemical binding]; other site 138119005456 oxyanion hole (OAH) forming residues; other site 138119005457 trimer interface [polypeptide binding]; other site 138119005458 putative acyltransferase; Provisional; Region: PRK05790 138119005459 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119005460 dimer interface [polypeptide binding]; other site 138119005461 active site 138119005462 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 138119005463 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 138119005464 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 138119005465 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 138119005466 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119005467 4Fe-4S binding domain; Region: Fer4; cl02805 138119005468 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119005469 Cysteine-rich domain; Region: CCG; pfam02754 138119005470 Cysteine-rich domain; Region: CCG; pfam02754 138119005471 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119005472 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 138119005473 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119005474 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 138119005475 Ligand binding site [chemical binding]; other site 138119005476 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119005477 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119005478 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 138119005479 FAD binding site [chemical binding]; other site 138119005480 homotetramer interface [polypeptide binding]; other site 138119005481 substrate binding pocket [chemical binding]; other site 138119005482 catalytic base [active] 138119005483 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 138119005484 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119005485 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119005486 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119005487 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 138119005488 FAD binding site [chemical binding]; other site 138119005489 homotetramer interface [polypeptide binding]; other site 138119005490 substrate binding pocket [chemical binding]; other site 138119005491 catalytic base [active] 138119005492 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 138119005493 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 138119005494 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119005495 putative active site [active] 138119005496 PAS domain; Region: PAS; smart00091 138119005497 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 138119005498 Walker A motif; other site 138119005499 ATP binding site [chemical binding]; other site 138119005500 Walker B motif; other site 138119005501 arginine finger; other site 138119005502 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119005503 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119005504 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119005505 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 138119005506 non-specific DNA binding site [nucleotide binding]; other site 138119005507 salt bridge; other site 138119005508 sequence-specific DNA binding site [nucleotide binding]; other site 138119005509 TIGR04076 family protein; Region: TIGR04076 138119005510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119005511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119005512 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119005513 dimerization interface [polypeptide binding]; other site 138119005514 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119005515 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119005516 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119005517 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 138119005518 non-specific DNA binding site [nucleotide binding]; other site 138119005519 salt bridge; other site 138119005520 sequence-specific DNA binding site [nucleotide binding]; other site 138119005521 Beta-lactamase; Region: Beta-lactamase; pfam00144 138119005522 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 138119005523 Amidase; Region: Amidase; cl11426 138119005524 PAS domain; Region: PAS_9; pfam13426 138119005525 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119005526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119005527 metal binding site [ion binding]; metal-binding site 138119005528 active site 138119005529 I-site; other site 138119005530 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 138119005531 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119005532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119005533 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 138119005534 DNA binding residues [nucleotide binding] 138119005535 active site 138119005536 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 138119005537 Cupin domain; Region: Cupin_2; pfam07883 138119005538 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119005539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119005540 Coenzyme A binding pocket [chemical binding]; other site 138119005541 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 138119005542 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 138119005543 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 138119005544 active site 138119005545 catalytic tetrad [active] 138119005546 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 138119005547 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 138119005548 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 138119005549 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 138119005550 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119005551 catalytic residue [active] 138119005552 GTPase RsgA; Reviewed; Region: PRK01889 138119005553 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 138119005554 RNA binding site [nucleotide binding]; other site 138119005555 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 138119005556 GTPase/Zn-binding domain interface [polypeptide binding]; other site 138119005557 GTP/Mg2+ binding site [chemical binding]; other site 138119005558 G4 box; other site 138119005559 G5 box; other site 138119005560 G1 box; other site 138119005561 Switch I region; other site 138119005562 G2 box; other site 138119005563 G3 box; other site 138119005564 Switch II region; other site 138119005565 hypothetical protein; Provisional; Region: PRK13665 138119005566 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 138119005567 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 138119005568 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 138119005569 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 138119005570 Protein of unknown function (DUF401); Region: DUF401; cl00830 138119005571 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 138119005572 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 138119005573 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 138119005574 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 138119005575 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 138119005576 TrkA-N domain; Region: TrkA_N; pfam02254 138119005577 TrkA-C domain; Region: TrkA_C; pfam02080 138119005578 TrkA-N domain; Region: TrkA_N; pfam02254 138119005579 TrkA-C domain; Region: TrkA_C; pfam02080 138119005580 multidrug efflux protein; Reviewed; Region: PRK01766 138119005581 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 138119005582 cation binding site [ion binding]; other site 138119005583 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119005584 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 138119005585 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119005586 Cysteine-rich domain; Region: CCG; pfam02754 138119005587 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 138119005588 AIR carboxylase; Region: AIRC; smart01001 138119005589 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 138119005590 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119005591 Walker A/P-loop; other site 138119005592 ATP binding site [chemical binding]; other site 138119005593 Q-loop/lid; other site 138119005594 ABC transporter signature motif; other site 138119005595 Walker B; other site 138119005596 D-loop; other site 138119005597 H-loop/switch region; other site 138119005598 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 138119005599 ABC-ATPase subunit interface; other site 138119005600 dimer interface [polypeptide binding]; other site 138119005601 putative PBP binding regions; other site 138119005602 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119005603 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 138119005604 ABC-ATPase subunit interface; other site 138119005605 dimer interface [polypeptide binding]; other site 138119005606 putative PBP binding regions; other site 138119005607 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 138119005608 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 138119005609 intersubunit interface [polypeptide binding]; other site 138119005610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119005611 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119005612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119005613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119005614 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 138119005615 active site 138119005616 phosphorylation site [posttranslational modification] 138119005617 intermolecular recognition site; other site 138119005618 dimerization interface [polypeptide binding]; other site 138119005619 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 138119005620 DNA binding site [nucleotide binding] 138119005621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119005622 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119005623 dimerization interface [polypeptide binding]; other site 138119005624 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 138119005625 dimer interface [polypeptide binding]; other site 138119005626 phosphorylation site [posttranslational modification] 138119005627 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 138119005628 ATP binding site [chemical binding]; other site 138119005629 Mg2+ binding site [ion binding]; other site 138119005630 G-X-G motif; other site 138119005631 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 138119005632 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 138119005633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119005634 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 138119005635 Walker A/P-loop; other site 138119005636 ATP binding site [chemical binding]; other site 138119005637 Q-loop/lid; other site 138119005638 ABC transporter signature motif; other site 138119005639 Walker B; other site 138119005640 D-loop; other site 138119005641 H-loop/switch region; other site 138119005642 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 138119005643 Domain of unknown function DUF20; Region: UPF0118; pfam01594 138119005644 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119005645 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 138119005646 FeS/SAM binding site; other site 138119005647 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119005648 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 138119005649 DEAD-like helicases superfamily; Region: DEXDc; smart00487 138119005650 ATP binding site [chemical binding]; other site 138119005651 putative Mg++ binding site [ion binding]; other site 138119005652 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 138119005653 nucleotide binding region [chemical binding]; other site 138119005654 ATP-binding site [chemical binding]; other site 138119005655 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 138119005656 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 138119005657 ATP binding site [chemical binding]; other site 138119005658 putative Mg++ binding site [ion binding]; other site 138119005659 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 138119005660 nucleotide binding region [chemical binding]; other site 138119005661 ATP-binding site [chemical binding]; other site 138119005662 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 138119005663 HRDC domain; Region: HRDC; pfam00570 138119005664 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 138119005665 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119005666 B12 binding site [chemical binding]; other site 138119005667 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119005668 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119005669 DNA-binding site [nucleotide binding]; DNA binding site 138119005670 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 138119005671 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 138119005672 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119005673 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 138119005674 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119005675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 138119005676 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 138119005677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 138119005678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119005679 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 138119005680 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119005681 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 138119005682 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119005683 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 138119005684 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119005685 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119005686 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 138119005687 hydrophobic ligand binding site; other site 138119005688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 138119005689 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 138119005690 ArsC family; Region: ArsC; pfam03960 138119005691 catalytic residue [active] 138119005692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119005693 HAMP domain; Region: HAMP; pfam00672 138119005694 dimerization interface [polypeptide binding]; other site 138119005695 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 138119005696 dimer interface [polypeptide binding]; other site 138119005697 phosphorylation site [posttranslational modification] 138119005698 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 138119005699 ATP binding site [chemical binding]; other site 138119005700 Mg2+ binding site [ion binding]; other site 138119005701 G-X-G motif; other site 138119005702 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119005703 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 138119005704 active site 138119005705 phosphorylation site [posttranslational modification] 138119005706 intermolecular recognition site; other site 138119005707 dimerization interface [polypeptide binding]; other site 138119005708 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 138119005709 DNA binding site [nucleotide binding] 138119005710 Amidohydrolase; Region: Amidohydro_4; pfam13147 138119005711 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 138119005712 active site 138119005713 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 138119005714 CoenzymeA binding site [chemical binding]; other site 138119005715 subunit interaction site [polypeptide binding]; other site 138119005716 PHB binding site; other site 138119005717 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 138119005718 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 138119005719 active site 138119005720 Zn binding site [ion binding]; other site 138119005721 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 138119005722 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 138119005723 RNA/DNA hybrid binding site [nucleotide binding]; other site 138119005724 active site 138119005725 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 138119005726 Peptidase family M50; Region: Peptidase_M50; pfam02163 138119005727 active site 138119005728 putative substrate binding region [chemical binding]; other site 138119005729 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 138119005730 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 138119005731 DEAD_2; Region: DEAD_2; pfam06733 138119005732 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 138119005733 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 138119005734 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 138119005735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119005736 homodimer interface [polypeptide binding]; other site 138119005737 catalytic residue [active] 138119005738 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 138119005739 putative active site [active] 138119005740 putative metal binding site [ion binding]; other site 138119005741 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 138119005742 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 138119005743 active site 138119005744 catalytic site [active] 138119005745 substrate binding site [chemical binding]; other site 138119005746 Peptidase family M48; Region: Peptidase_M48; pfam01435 138119005747 Protein of unknown function, DUF606; Region: DUF606; pfam04657 138119005748 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 138119005749 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 138119005750 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 138119005751 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 138119005752 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 138119005753 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 138119005754 BON domain; Region: BON; pfam04972 138119005755 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 138119005756 BON domain; Region: BON; pfam04972 138119005757 BON domain; Region: BON; pfam04972 138119005758 BON domain; Region: BON; pfam04972 138119005759 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 138119005760 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 138119005761 active site 138119005762 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 138119005763 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 138119005764 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 138119005765 active site 138119005766 putative substrate binding pocket [chemical binding]; other site 138119005767 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 138119005768 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 138119005769 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 138119005770 Na binding site [ion binding]; other site 138119005771 substrate binding site [chemical binding]; other site 138119005772 phenylhydantoinase; Validated; Region: PRK08323 138119005773 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 138119005774 tetramer interface [polypeptide binding]; other site 138119005775 active site 138119005776 peptidase; Reviewed; Region: PRK13004 138119005777 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 138119005778 putative metal binding site [ion binding]; other site 138119005779 putative dimer interface [polypeptide binding]; other site 138119005780 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 138119005781 homotrimer interaction site [polypeptide binding]; other site 138119005782 putative active site [active] 138119005783 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 138119005784 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 138119005785 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119005786 catalytic residue [active] 138119005787 GAF domain; Region: GAF; cl17456 138119005788 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119005789 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 138119005790 Walker A motif; other site 138119005791 ATP binding site [chemical binding]; other site 138119005792 Walker B motif; other site 138119005793 arginine finger; other site 138119005794 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 138119005795 DNA-binding interface [nucleotide binding]; DNA binding site 138119005796 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 138119005797 amidase catalytic site [active] 138119005798 Zn binding residues [ion binding]; other site 138119005799 substrate binding site [chemical binding]; other site 138119005800 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 138119005801 pentamer interface [polypeptide binding]; other site 138119005802 dodecaamer interface [polypeptide binding]; other site 138119005803 PAS domain; Region: PAS_9; pfam13426 138119005804 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119005805 putative active site [active] 138119005806 heme pocket [chemical binding]; other site 138119005807 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119005808 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 138119005809 Walker A motif; other site 138119005810 ATP binding site [chemical binding]; other site 138119005811 Walker B motif; other site 138119005812 arginine finger; other site 138119005813 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119005814 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 138119005815 elongation factor G; Reviewed; Region: PRK12740 138119005816 G1 box; other site 138119005817 putative GEF interaction site [polypeptide binding]; other site 138119005818 GTP/Mg2+ binding site [chemical binding]; other site 138119005819 Switch I region; other site 138119005820 G2 box; other site 138119005821 G3 box; other site 138119005822 Switch II region; other site 138119005823 G4 box; other site 138119005824 G5 box; other site 138119005825 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 138119005826 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 138119005827 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 138119005828 isoaspartyl dipeptidase; Provisional; Region: PRK10657 138119005829 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 138119005830 dimer interface [polypeptide binding]; other site 138119005831 active site 138119005832 stage V sporulation protein B; Region: spore_V_B; TIGR02900 138119005833 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 138119005834 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 138119005835 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 138119005836 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 138119005837 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 138119005838 homodecamer interface [polypeptide binding]; other site 138119005839 GTP cyclohydrolase I; Provisional; Region: PLN03044 138119005840 active site 138119005841 putative catalytic site residues [active] 138119005842 zinc binding site [ion binding]; other site 138119005843 GTP-CH-I/GFRP interaction surface; other site 138119005844 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 138119005845 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 138119005846 binding surface 138119005847 TPR motif; other site 138119005848 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 138119005849 binding surface 138119005850 TPR motif; other site 138119005851 TPR repeat; Region: TPR_11; pfam13414 138119005852 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 138119005853 binding surface 138119005854 TPR motif; other site 138119005855 TPR repeat; Region: TPR_11; pfam13414 138119005856 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 138119005857 metal binding site 2 [ion binding]; metal-binding site 138119005858 putative DNA binding helix; other site 138119005859 metal binding site 1 [ion binding]; metal-binding site 138119005860 dimer interface [polypeptide binding]; other site 138119005861 structural Zn2+ binding site [ion binding]; other site 138119005862 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119005863 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 138119005864 Walker A motif; other site 138119005865 ATP binding site [chemical binding]; other site 138119005866 Walker B motif; other site 138119005867 arginine finger; other site 138119005868 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119005869 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119005870 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119005871 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 138119005872 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 138119005873 Peptidase family M28; Region: Peptidase_M28; pfam04389 138119005874 metal binding site [ion binding]; metal-binding site 138119005875 PLD-like domain; Region: PLDc_2; pfam13091 138119005876 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 138119005877 putative active site [active] 138119005878 catalytic site [active] 138119005879 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 138119005880 PLD-like domain; Region: PLDc_2; pfam13091 138119005881 putative active site [active] 138119005882 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 138119005883 catalytic core [active] 138119005884 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 138119005885 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 138119005886 Cell division protein FtsA; Region: FtsA; smart00842 138119005887 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119005888 nucleotide binding site [chemical binding]; other site 138119005889 6-phosphofructokinase; Provisional; Region: PRK03202 138119005890 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 138119005891 active site 138119005892 ADP/pyrophosphate binding site [chemical binding]; other site 138119005893 dimerization interface [polypeptide binding]; other site 138119005894 allosteric effector site; other site 138119005895 fructose-1,6-bisphosphate binding site; other site 138119005896 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 138119005897 Walker A motif; other site 138119005898 ATP binding site [chemical binding]; other site 138119005899 Walker B motif; other site 138119005900 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 138119005901 arginine finger; other site 138119005902 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 138119005903 DnaA box-binding interface [nucleotide binding]; other site 138119005904 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 138119005905 active site 138119005906 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 138119005907 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 138119005908 intersubunit interface [polypeptide binding]; other site 138119005909 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 138119005910 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 138119005911 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 138119005912 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 138119005913 ABC-ATPase subunit interface; other site 138119005914 dimer interface [polypeptide binding]; other site 138119005915 putative PBP binding regions; other site 138119005916 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 138119005917 metal binding site 2 [ion binding]; metal-binding site 138119005918 putative DNA binding helix; other site 138119005919 metal binding site 1 [ion binding]; metal-binding site 138119005920 dimer interface [polypeptide binding]; other site 138119005921 structural Zn2+ binding site [ion binding]; other site 138119005922 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 138119005923 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119005924 SpoVR like protein; Region: SpoVR; pfam04293 138119005925 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 138119005926 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 138119005927 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119005928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119005929 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119005930 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 138119005931 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 138119005932 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 138119005933 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 138119005934 homodimer interface [polypeptide binding]; other site 138119005935 Walker A motif; other site 138119005936 ATP binding site [chemical binding]; other site 138119005937 hydroxycobalamin binding site [chemical binding]; other site 138119005938 Walker B motif; other site 138119005939 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119005940 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 138119005941 binding surface 138119005942 TPR motif; other site 138119005943 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119005944 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119005945 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119005946 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 138119005947 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 138119005948 Uncharacterized conserved protein [Function unknown]; Region: COG1284 138119005949 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138119005950 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138119005951 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 138119005952 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 138119005953 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 138119005954 TMP-binding site; other site 138119005955 ATP-binding site [chemical binding]; other site 138119005956 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 138119005957 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 138119005958 peptide binding site [polypeptide binding]; other site 138119005959 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 138119005960 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119005961 Walker A/P-loop; other site 138119005962 ATP binding site [chemical binding]; other site 138119005963 Q-loop/lid; other site 138119005964 ABC transporter signature motif; other site 138119005965 Walker B; other site 138119005966 D-loop; other site 138119005967 H-loop/switch region; other site 138119005968 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 138119005969 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138119005970 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119005971 Walker A/P-loop; other site 138119005972 ATP binding site [chemical binding]; other site 138119005973 Q-loop/lid; other site 138119005974 ABC transporter signature motif; other site 138119005975 Walker B; other site 138119005976 D-loop; other site 138119005977 H-loop/switch region; other site 138119005978 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 138119005979 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119005980 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 138119005981 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 138119005982 dimer interface [polypeptide binding]; other site 138119005983 conserved gate region; other site 138119005984 putative PBP binding loops; other site 138119005985 ABC-ATPase subunit interface; other site 138119005986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119005987 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 138119005988 dimer interface [polypeptide binding]; other site 138119005989 conserved gate region; other site 138119005990 putative PBP binding loops; other site 138119005991 ABC-ATPase subunit interface; other site 138119005992 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 138119005993 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 138119005994 active site 138119005995 phosphorylation site [posttranslational modification] 138119005996 intermolecular recognition site; other site 138119005997 dimerization interface [polypeptide binding]; other site 138119005998 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 138119005999 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 138119006000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119006001 Coenzyme A binding pocket [chemical binding]; other site 138119006002 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119006003 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 138119006004 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 138119006005 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 138119006006 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 138119006007 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 138119006008 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 138119006009 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 138119006010 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 138119006011 active site 138119006012 catalytic site [active] 138119006013 substrate binding site [chemical binding]; other site 138119006014 DEAD/DEAH box helicase; Region: DEAD; pfam00270 138119006015 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 138119006016 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 138119006017 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 138119006018 Herpesvirus large structural phosphoprotein UL32; Region: Herpes_UL32; pfam06070 138119006019 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 138119006020 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138119006021 active site 138119006022 metal binding site [ion binding]; metal-binding site 138119006023 homotetramer interface [polypeptide binding]; other site 138119006024 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 138119006025 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119006026 putative substrate translocation pore; other site 138119006027 Protein of unknown function, DUF606; Region: DUF606; pfam04657 138119006028 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 138119006029 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 138119006030 GIY-YIG motif/motif A; other site 138119006031 active site 138119006032 catalytic site [active] 138119006033 putative DNA binding site [nucleotide binding]; other site 138119006034 metal binding site [ion binding]; metal-binding site 138119006035 UvrB/uvrC motif; Region: UVR; pfam02151 138119006036 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 138119006037 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119006038 NlpC/P60 family; Region: NLPC_P60; pfam00877 138119006039 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119006040 Zn2+ binding site [ion binding]; other site 138119006041 Mg2+ binding site [ion binding]; other site 138119006042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119006043 Coenzyme A binding pocket [chemical binding]; other site 138119006044 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119006045 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119006046 Walker A motif; other site 138119006047 ATP binding site [chemical binding]; other site 138119006048 Walker B motif; other site 138119006049 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119006050 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 138119006051 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 138119006052 homotetramer interface [polypeptide binding]; other site 138119006053 ligand binding site [chemical binding]; other site 138119006054 catalytic site [active] 138119006055 NAD binding site [chemical binding]; other site 138119006056 AAA domain; Region: AAA_31; pfam13614 138119006057 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 138119006058 Walker A motif; other site 138119006059 oligoendopeptidase F; Region: pepF; TIGR00181 138119006060 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 138119006061 active site 138119006062 Zn binding site [ion binding]; other site 138119006063 prephenate dehydratase; Provisional; Region: PRK11898 138119006064 Prephenate dehydratase; Region: PDT; pfam00800 138119006065 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 138119006066 putative L-Phe binding site [chemical binding]; other site 138119006067 hypothetical protein; Provisional; Region: PRK04164 138119006068 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 138119006069 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 138119006070 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 138119006071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119006072 catalytic residue [active] 138119006073 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 138119006074 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 138119006075 active site 138119006076 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 138119006077 GIY-YIG motif/motif A; other site 138119006078 putative active site [active] 138119006079 putative metal binding site [ion binding]; other site 138119006080 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 138119006081 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 138119006082 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 138119006083 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 138119006084 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 138119006085 helix-hairpin-helix signature motif; other site 138119006086 substrate binding pocket [chemical binding]; other site 138119006087 active site 138119006088 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 138119006089 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119006090 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119006091 Zn2+ binding site [ion binding]; other site 138119006092 Mg2+ binding site [ion binding]; other site 138119006093 hypothetical protein; Provisional; Region: PRK10621 138119006094 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 138119006095 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 138119006096 VanW like protein; Region: VanW; pfam04294 138119006097 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 138119006098 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 138119006099 Uncharacterized conserved protein [Function unknown]; Region: COG1739 138119006100 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 138119006101 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 138119006102 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 138119006103 active site 1 [active] 138119006104 active site 2 [active] 138119006105 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 138119006106 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 138119006107 S-adenosylmethionine binding site [chemical binding]; other site 138119006108 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 138119006109 active site 138119006110 homotetramer interface [polypeptide binding]; other site 138119006111 homodimer interface [polypeptide binding]; other site 138119006112 Late competence development protein ComFB; Region: ComFB; pfam10719 138119006113 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119006114 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 138119006115 ligand binding site [chemical binding]; other site 138119006116 flexible hinge region; other site 138119006117 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 138119006118 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 138119006119 ATP binding site [chemical binding]; other site 138119006120 putative Mg++ binding site [ion binding]; other site 138119006121 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 138119006122 nucleotide binding region [chemical binding]; other site 138119006123 ATP-binding site [chemical binding]; other site 138119006124 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 138119006125 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 138119006126 Repair protein; Region: Repair_PSII; pfam04536 138119006127 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 138119006128 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 138119006129 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 138119006130 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 138119006131 Rubredoxin; Region: Rubredoxin; pfam00301 138119006132 iron binding site [ion binding]; other site 138119006133 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 138119006134 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 138119006135 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 138119006136 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119006137 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119006138 Cysteine-rich domain; Region: CCG; pfam02754 138119006139 Cysteine-rich domain; Region: CCG; pfam02754 138119006140 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119006141 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 138119006142 Malic enzyme, N-terminal domain; Region: malic; pfam00390 138119006143 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 138119006144 putative NAD(P) binding site [chemical binding]; other site 138119006145 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 138119006146 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 138119006147 CoA binding domain; Region: CoA_binding; smart00881 138119006148 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 138119006149 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 138119006150 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 138119006151 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 138119006152 binding surface 138119006153 TPR motif; other site 138119006154 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119006155 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119006156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119006157 Coenzyme A binding pocket [chemical binding]; other site 138119006158 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 138119006159 homodimer interface [polypeptide binding]; other site 138119006160 homotetramer interface [polypeptide binding]; other site 138119006161 active site pocket [active] 138119006162 cleavage site 138119006163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119006164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119006165 conserved hypothetical protein; Region: TIGR02231 138119006166 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 138119006167 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 138119006168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119006169 homodimer interface [polypeptide binding]; other site 138119006170 catalytic residue [active] 138119006171 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 138119006172 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 138119006173 active site 138119006174 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 138119006175 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 138119006176 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 138119006177 active site 138119006178 dimer interface [polypeptide binding]; other site 138119006179 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 138119006180 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 138119006181 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138119006182 putative active site [active] 138119006183 metal binding site [ion binding]; metal-binding site 138119006184 homodimer binding site [polypeptide binding]; other site 138119006185 ribonuclease Y; Region: RNase_Y; TIGR03319 138119006186 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 138119006187 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119006188 Zn2+ binding site [ion binding]; other site 138119006189 Mg2+ binding site [ion binding]; other site 138119006190 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 138119006191 recombinase A; Provisional; Region: recA; PRK09354 138119006192 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 138119006193 hexamer interface [polypeptide binding]; other site 138119006194 Walker A motif; other site 138119006195 ATP binding site [chemical binding]; other site 138119006196 Walker B motif; other site 138119006197 hydrogenase 1 large subunit; Provisional; Region: PRK10170 138119006198 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 138119006199 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119006200 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 138119006201 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119006202 Transcriptional regulator PadR-like family; Region: PadR; cl17335 138119006203 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119006204 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 138119006205 non-specific DNA binding site [nucleotide binding]; other site 138119006206 salt bridge; other site 138119006207 sequence-specific DNA binding site [nucleotide binding]; other site 138119006208 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119006209 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 138119006210 S-adenosylmethionine binding site [chemical binding]; other site 138119006211 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 138119006212 dimerization interface [polypeptide binding]; other site 138119006213 putative DNA binding site [nucleotide binding]; other site 138119006214 putative Zn2+ binding site [ion binding]; other site 138119006215 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119006216 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 138119006217 DNA binding residues [nucleotide binding] 138119006218 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 138119006219 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 138119006220 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 138119006221 ATP binding site [chemical binding]; other site 138119006222 Mg++ binding site [ion binding]; other site 138119006223 motif III; other site 138119006224 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 138119006225 nucleotide binding region [chemical binding]; other site 138119006226 ATP-binding site [chemical binding]; other site 138119006227 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 138119006228 RNA binding site [nucleotide binding]; other site 138119006229 competence damage-inducible protein A; Provisional; Region: PRK00549 138119006230 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 138119006231 putative MPT binding site; other site 138119006232 Competence-damaged protein; Region: CinA; pfam02464 138119006233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119006234 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 138119006235 ATP binding site [chemical binding]; other site 138119006236 Mg2+ binding site [ion binding]; other site 138119006237 G-X-G motif; other site 138119006238 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 138119006239 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 138119006240 active site 138119006241 phosphorylation site [posttranslational modification] 138119006242 intermolecular recognition site; other site 138119006243 dimerization interface [polypeptide binding]; other site 138119006244 LytTr DNA-binding domain; Region: LytTR; smart00850 138119006245 KWG Leptospira; Region: KWG; pfam07656 138119006246 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006247 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006248 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006249 LemA family; Region: LemA; cl00742 138119006250 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 138119006251 Short C-terminal domain; Region: SHOCT; pfam09851 138119006252 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006253 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006254 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006255 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 138119006256 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 138119006257 Walker A motif; other site 138119006258 ATP binding site [chemical binding]; other site 138119006259 Walker B motif; other site 138119006260 arginine finger; other site 138119006261 Peptidase family M41; Region: Peptidase_M41; pfam01434 138119006262 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 138119006263 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 138119006264 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 138119006265 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 138119006266 FeS/SAM binding site; other site 138119006267 TRAM domain; Region: TRAM; cl01282 138119006268 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 138119006269 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 138119006270 hypothetical protein; Provisional; Region: PRK00955 138119006271 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 138119006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 138119006273 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 138119006274 Helix-turn-helix domain; Region: HTH_25; pfam13413 138119006275 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 138119006276 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119006277 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 138119006278 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 138119006279 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 138119006280 active site residue [active] 138119006281 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 138119006282 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 138119006283 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119006284 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 138119006285 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 138119006286 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 138119006287 active site 138119006288 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138119006289 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119006290 Walker A/P-loop; other site 138119006291 ATP binding site [chemical binding]; other site 138119006292 Q-loop/lid; other site 138119006293 ABC transporter signature motif; other site 138119006294 Walker B; other site 138119006295 D-loop; other site 138119006296 H-loop/switch region; other site 138119006297 ABC transporter; Region: ABC_tran_2; pfam12848 138119006298 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006299 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 138119006300 Cache domain; Region: Cache_1; pfam02743 138119006301 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119006302 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 138119006303 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119006304 dimer interface [polypeptide binding]; other site 138119006305 putative CheW interface [polypeptide binding]; other site 138119006306 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 138119006307 catalytic core [active] 138119006308 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 138119006309 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 138119006310 XdhC Rossmann domain; Region: XdhC_C; pfam13478 138119006311 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 138119006312 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 138119006313 Ligand binding site; other site 138119006314 metal-binding site 138119006315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119006316 Zn2+ binding site [ion binding]; other site 138119006317 Mg2+ binding site [ion binding]; other site 138119006318 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 138119006319 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119006320 acyl-activating enzyme (AAE) consensus motif; other site 138119006321 active site 138119006322 AMP binding site [chemical binding]; other site 138119006323 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 138119006324 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 138119006325 FeS/SAM binding site; other site 138119006326 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119006327 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 138119006328 S-adenosylmethionine binding site [chemical binding]; other site 138119006329 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 138119006330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119006331 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119006332 Cysteine-rich domain; Region: CCG; pfam02754 138119006333 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 138119006334 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119006335 catalytic loop [active] 138119006336 iron binding site [ion binding]; other site 138119006337 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 138119006338 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 138119006339 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 138119006340 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 138119006341 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119006342 GAF domain; Region: GAF; pfam01590 138119006343 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119006344 putative active site [active] 138119006345 heme pocket [chemical binding]; other site 138119006346 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 138119006347 Walker A motif; other site 138119006348 ATP binding site [chemical binding]; other site 138119006349 Walker B motif; other site 138119006350 arginine finger; other site 138119006351 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119006352 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 138119006353 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 138119006354 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119006355 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119006356 molybdopterin cofactor binding site; other site 138119006357 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 138119006358 molybdopterin cofactor binding site; other site 138119006359 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 138119006360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119006361 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119006362 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119006363 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 138119006364 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 138119006365 Sulfate transporter family; Region: Sulfate_transp; pfam00916 138119006366 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 138119006367 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 138119006368 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 138119006369 trimer interface [polypeptide binding]; other site 138119006370 active site 138119006371 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 138119006372 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 138119006373 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 138119006374 ligand binding site [chemical binding]; other site 138119006375 flexible hinge region; other site 138119006376 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 138119006377 putative switch regulator; other site 138119006378 non-specific DNA interactions [nucleotide binding]; other site 138119006379 DNA binding site [nucleotide binding] 138119006380 sequence specific DNA binding site [nucleotide binding]; other site 138119006381 putative cAMP binding site [chemical binding]; other site 138119006382 Putative zinc-finger; Region: zf-HC2; pfam13490 138119006383 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 138119006384 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119006385 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 138119006386 DNA binding residues [nucleotide binding] 138119006387 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 138119006388 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 138119006389 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 138119006390 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 138119006391 Uncharacterized conserved protein [Function unknown]; Region: COG5464 138119006392 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 138119006393 homotrimer interaction site [polypeptide binding]; other site 138119006394 putative active site [active] 138119006395 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 138119006396 S-adenosylmethionine binding site [chemical binding]; other site 138119006397 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 138119006398 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 138119006399 active site 138119006400 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 138119006401 active site 138119006402 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 138119006403 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 138119006404 putative substrate translocation pore; other site 138119006405 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 138119006406 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 138119006407 Walker A motif; other site 138119006408 ATP binding site [chemical binding]; other site 138119006409 Walker B motif; other site 138119006410 arginine finger; other site 138119006411 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 138119006412 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119006413 glucokinase, proteobacterial type; Region: glk; TIGR00749 138119006414 Glucokinase; Region: Glucokinase; pfam02685 138119006415 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119006416 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119006417 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119006418 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119006419 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 138119006420 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 138119006421 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 138119006422 Integrase core domain; Region: rve; pfam00665 138119006423 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119006424 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119006425 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119006426 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119006427 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119006428 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 138119006429 Walker A/P-loop; other site 138119006430 ATP binding site [chemical binding]; other site 138119006431 Q-loop/lid; other site 138119006432 ABC transporter signature motif; other site 138119006433 Walker B; other site 138119006434 D-loop; other site 138119006435 H-loop/switch region; other site 138119006436 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119006437 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 138119006438 active site 138119006439 phosphorylation site [posttranslational modification] 138119006440 intermolecular recognition site; other site 138119006441 dimerization interface [polypeptide binding]; other site 138119006442 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 138119006443 DNA binding residues [nucleotide binding] 138119006444 dimerization interface [polypeptide binding]; other site 138119006445 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119006446 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 138119006447 ATP binding site [chemical binding]; other site 138119006448 Mg2+ binding site [ion binding]; other site 138119006449 G-X-G motif; other site 138119006450 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 138119006451 substrate binding pocket [chemical binding]; other site 138119006452 substrate-Mg2+ binding site; other site 138119006453 aspartate-rich region 1; other site 138119006454 aspartate-rich region 2; other site 138119006455 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119006456 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 138119006457 Walker A/P-loop; other site 138119006458 ATP binding site [chemical binding]; other site 138119006459 Q-loop/lid; other site 138119006460 ABC transporter signature motif; other site 138119006461 Walker B; other site 138119006462 D-loop; other site 138119006463 H-loop/switch region; other site 138119006464 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 138119006465 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 138119006466 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 138119006467 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119006468 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 138119006469 active site 138119006470 phosphorylation site [posttranslational modification] 138119006471 intermolecular recognition site; other site 138119006472 dimerization interface [polypeptide binding]; other site 138119006473 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 138119006474 DNA binding residues [nucleotide binding] 138119006475 dimerization interface [polypeptide binding]; other site 138119006476 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119006477 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 138119006478 ATP binding site [chemical binding]; other site 138119006479 Mg2+ binding site [ion binding]; other site 138119006480 G-X-G motif; other site 138119006481 Trans-Isoprenyl Diphosphate Synthases; Region: Trans_IPPS; cd00867 138119006482 substrate binding pocket [chemical binding]; other site 138119006483 substrate-Mg2+ binding site; other site 138119006484 aspartate-rich region 1; other site 138119006485 aspartate-rich region 2; other site 138119006486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 138119006487 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119006488 putative active site [active] 138119006489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 138119006490 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 138119006491 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 138119006492 active site 138119006493 dimer interface [polypeptide binding]; other site 138119006494 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 138119006495 dimer interface [polypeptide binding]; other site 138119006496 active site 138119006497 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 138119006498 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 138119006499 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 138119006500 active site 138119006501 homodimer interface [polypeptide binding]; other site 138119006502 catalytic site [active] 138119006503 4-alpha-glucanotransferase; Provisional; Region: PRK14508 138119006504 glycogen synthase; Provisional; Region: glgA; PRK00654 138119006505 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 138119006506 ADP-binding pocket [chemical binding]; other site 138119006507 homodimer interface [polypeptide binding]; other site 138119006508 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 138119006509 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 138119006510 active site 138119006511 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 138119006512 dimer interface [polypeptide binding]; other site 138119006513 N-terminal domain interface [polypeptide binding]; other site 138119006514 sulfate 1 binding site; other site 138119006515 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 138119006516 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 138119006517 ligand binding site; other site 138119006518 oligomer interface; other site 138119006519 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 138119006520 dimer interface [polypeptide binding]; other site 138119006521 N-terminal domain interface [polypeptide binding]; other site 138119006522 sulfate 1 binding site; other site 138119006523 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 138119006524 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 138119006525 active site pocket [active] 138119006526 glycogen branching enzyme; Provisional; Region: PRK12313 138119006527 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 138119006528 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 138119006529 active site 138119006530 catalytic site [active] 138119006531 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 138119006532 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 138119006533 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 138119006534 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119006535 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 138119006536 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 138119006537 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119006538 ATP-grasp domain; Region: ATP-grasp_4; cl17255 138119006539 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 138119006540 IMP binding site; other site 138119006541 dimer interface [polypeptide binding]; other site 138119006542 interdomain contacts; other site 138119006543 partial ornithine binding site; other site 138119006544 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 138119006545 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 138119006546 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 138119006547 catalytic site [active] 138119006548 subunit interface [polypeptide binding]; other site 138119006549 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 138119006550 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119006551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119006552 Coenzyme A binding pocket [chemical binding]; other site 138119006553 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 138119006554 Sulfatase; Region: Sulfatase; pfam00884 138119006555 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 138119006556 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 138119006557 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 138119006558 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH_2; cd04602 138119006559 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 138119006560 active site 138119006561 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 138119006562 HD domain; Region: HD_3; pfam13023 138119006563 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 138119006564 Ligand Binding Site [chemical binding]; other site 138119006565 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 138119006566 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138119006567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119006568 Walker A/P-loop; other site 138119006569 ATP binding site [chemical binding]; other site 138119006570 Q-loop/lid; other site 138119006571 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006572 ABC transporter signature motif; other site 138119006573 Walker B; other site 138119006574 D-loop; other site 138119006575 ABC transporter; Region: ABC_tran_2; pfam12848 138119006576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006577 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119006578 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 138119006579 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119006580 peptidase T; Region: peptidase-T; TIGR01882 138119006581 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 138119006582 metal binding site [ion binding]; metal-binding site 138119006583 dimer interface [polypeptide binding]; other site 138119006584 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 138119006585 Response regulator receiver domain; Region: Response_reg; pfam00072 138119006586 active site 138119006587 phosphorylation site [posttranslational modification] 138119006588 intermolecular recognition site; other site 138119006589 dimerization interface [polypeptide binding]; other site 138119006590 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 138119006591 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119006592 putative substrate translocation pore; other site 138119006593 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 138119006594 FAD binding domain; Region: FAD_binding_4; pfam01565 138119006595 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 138119006596 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 138119006597 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 138119006598 dimer interface [polypeptide binding]; other site 138119006599 phosphorylation site [posttranslational modification] 138119006600 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 138119006601 ATP binding site [chemical binding]; other site 138119006602 Mg2+ binding site [ion binding]; other site 138119006603 G-X-G motif; other site 138119006604 heat shock protein 90; Provisional; Region: PRK05218 138119006605 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 138119006606 ATP binding site [chemical binding]; other site 138119006607 Mg2+ binding site [ion binding]; other site 138119006608 G-X-G motif; other site 138119006609 RmuC family; Region: RmuC; pfam02646 138119006610 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 138119006611 Protein export membrane protein; Region: SecD_SecF; cl14618 138119006612 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119006613 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119006614 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119006615 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119006616 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119006617 DNA topoisomerase III; Provisional; Region: PRK07726 138119006618 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 138119006619 active site 138119006620 putative interdomain interaction site [polypeptide binding]; other site 138119006621 putative metal-binding site [ion binding]; other site 138119006622 putative nucleotide binding site [chemical binding]; other site 138119006623 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 138119006624 domain I; other site 138119006625 DNA binding groove [nucleotide binding] 138119006626 phosphate binding site [ion binding]; other site 138119006627 domain II; other site 138119006628 domain III; other site 138119006629 nucleotide binding site [chemical binding]; other site 138119006630 catalytic site [active] 138119006631 domain IV; other site 138119006632 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 138119006633 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119006634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119006635 Walker A/P-loop; other site 138119006636 ATP binding site [chemical binding]; other site 138119006637 Q-loop/lid; other site 138119006638 ABC transporter signature motif; other site 138119006639 Walker B; other site 138119006640 D-loop; other site 138119006641 H-loop/switch region; other site 138119006642 CAAX protease self-immunity; Region: Abi; pfam02517 138119006643 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 138119006644 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 138119006645 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 138119006646 aspartate kinase; Validated; Region: PRK09181 138119006647 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 138119006648 putative catalytic residues [active] 138119006649 putative nucleotide binding site [chemical binding]; other site 138119006650 putative aspartate binding site [chemical binding]; other site 138119006651 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119006652 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119006653 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 138119006654 endonuclease III; Region: ENDO3c; smart00478 138119006655 minor groove reading motif; other site 138119006656 helix-hairpin-helix signature motif; other site 138119006657 substrate binding pocket [chemical binding]; other site 138119006658 active site 138119006659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119006660 Coenzyme A binding pocket [chemical binding]; other site 138119006661 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119006662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119006663 Coenzyme A binding pocket [chemical binding]; other site 138119006664 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 138119006665 ABC1 family; Region: ABC1; pfam03109 138119006666 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 138119006667 active site 138119006668 ATP binding site [chemical binding]; other site 138119006669 Uncharacterized conserved protein [Function unknown]; Region: COG3937 138119006670 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119006671 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 138119006672 putative binding site residues; other site 138119006673 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119006674 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 138119006675 ABC-ATPase subunit interface; other site 138119006676 dimer interface [polypeptide binding]; other site 138119006677 putative PBP binding regions; other site 138119006678 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119006679 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119006680 Walker A/P-loop; other site 138119006681 ATP binding site [chemical binding]; other site 138119006682 Q-loop/lid; other site 138119006683 ABC transporter signature motif; other site 138119006684 Walker B; other site 138119006685 D-loop; other site 138119006686 H-loop/switch region; other site 138119006687 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119006688 NlpC/P60 family; Region: NLPC_P60; pfam00877 138119006689 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 138119006690 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 138119006691 G1 box; other site 138119006692 putative GEF interaction site [polypeptide binding]; other site 138119006693 GTP/Mg2+ binding site [chemical binding]; other site 138119006694 Switch I region; other site 138119006695 G2 box; other site 138119006696 G3 box; other site 138119006697 Switch II region; other site 138119006698 G4 box; other site 138119006699 G5 box; other site 138119006700 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 138119006701 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 138119006702 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 138119006703 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 138119006704 Cysteine-rich domain; Region: CCG; pfam02754 138119006705 Cysteine-rich domain; Region: CCG; pfam02754 138119006706 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 138119006707 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119006708 4Fe-4S binding domain; Region: Fer4_6; pfam12837 138119006709 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 138119006710 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 138119006711 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119006712 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 138119006713 DNA binding residues [nucleotide binding] 138119006714 dimerization interface [polypeptide binding]; other site 138119006715 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 138119006716 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 138119006717 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 138119006718 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 138119006719 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 138119006720 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 138119006721 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 138119006722 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 138119006723 Predicted membrane protein [Function unknown]; Region: COG2323 138119006724 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 138119006725 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 138119006726 heat shock protein HtpX; Provisional; Region: PRK03982 138119006727 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 138119006728 Domain of unknown function DUF21; Region: DUF21; pfam01595 138119006729 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 138119006730 Transporter associated domain; Region: CorC_HlyC; smart01091 138119006731 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 138119006732 Mg binding site [ion binding]; other site 138119006733 nucleotide binding site [chemical binding]; other site 138119006734 putative protofilament interface [polypeptide binding]; other site 138119006735 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 138119006736 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 138119006737 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119006738 Spore germination protein; Region: Spore_permease; cl17796 138119006739 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 138119006740 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 138119006741 Walker A motif; other site 138119006742 ATP binding site [chemical binding]; other site 138119006743 Walker B motif; other site 138119006744 arginine finger; other site 138119006745 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 138119006746 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 138119006747 putative dimer interface [polypeptide binding]; other site 138119006748 active site pocket [active] 138119006749 putative cataytic base [active] 138119006750 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 138119006751 homotrimer interface [polypeptide binding]; other site 138119006752 Walker A motif; other site 138119006753 GTP binding site [chemical binding]; other site 138119006754 Walker B motif; other site 138119006755 cobalamin synthase; Reviewed; Region: cobS; PRK00235 138119006756 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 138119006757 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 138119006758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119006759 homodimer interface [polypeptide binding]; other site 138119006760 catalytic residue [active] 138119006761 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 138119006762 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 138119006763 Catalytic site [active] 138119006764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119006765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119006766 metal binding site [ion binding]; metal-binding site 138119006767 active site 138119006768 I-site; other site 138119006769 glycerate kinase; Region: TIGR00045 138119006770 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 138119006771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119006772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119006773 phosphoenolpyruvate synthase; Validated; Region: PRK06241 138119006774 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119006775 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 138119006776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119006777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119006778 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 138119006779 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119006780 Walker A/P-loop; other site 138119006781 ATP binding site [chemical binding]; other site 138119006782 Q-loop/lid; other site 138119006783 ABC transporter signature motif; other site 138119006784 Walker B; other site 138119006785 D-loop; other site 138119006786 H-loop/switch region; other site 138119006787 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 138119006788 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119006789 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 138119006790 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 138119006791 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119006792 catalytic loop [active] 138119006793 iron binding site [ion binding]; other site 138119006794 Cache domain; Region: Cache_1; pfam02743 138119006795 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119006796 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119006797 dimerization interface [polypeptide binding]; other site 138119006798 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119006799 dimer interface [polypeptide binding]; other site 138119006800 putative CheW interface [polypeptide binding]; other site 138119006801 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138119006802 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006803 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006804 ABC transporter; Region: ABC_tran_2; pfam12848 138119006805 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119006806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 138119006807 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 138119006808 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 138119006809 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119006810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119006811 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119006812 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 138119006813 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 138119006814 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 138119006815 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119006816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119006817 Walker A/P-loop; other site 138119006818 ATP binding site [chemical binding]; other site 138119006819 Q-loop/lid; other site 138119006820 ABC transporter signature motif; other site 138119006821 Walker B; other site 138119006822 D-loop; other site 138119006823 H-loop/switch region; other site 138119006824 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 138119006825 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 138119006826 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 138119006827 putative DNA binding site [nucleotide binding]; other site 138119006828 putative Zn2+ binding site [ion binding]; other site 138119006829 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119006830 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 138119006831 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119006832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119006833 Walker A/P-loop; other site 138119006834 ATP binding site [chemical binding]; other site 138119006835 Q-loop/lid; other site 138119006836 ABC transporter signature motif; other site 138119006837 Walker B; other site 138119006838 D-loop; other site 138119006839 H-loop/switch region; other site 138119006840 putative transposase OrfB; Reviewed; Region: PHA02517 138119006841 HTH-like domain; Region: HTH_21; pfam13276 138119006842 Integrase core domain; Region: rve; pfam00665 138119006843 Integrase core domain; Region: rve_3; pfam13683 138119006844 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 138119006845 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119006846 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119006847 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 138119006848 DNA binding residues [nucleotide binding] 138119006849 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 138119006850 active site 138119006851 metal binding site [ion binding]; metal-binding site 138119006852 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 138119006853 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119006854 Walker A/P-loop; other site 138119006855 ATP binding site [chemical binding]; other site 138119006856 Q-loop/lid; other site 138119006857 ABC transporter signature motif; other site 138119006858 Walker B; other site 138119006859 D-loop; other site 138119006860 H-loop/switch region; other site 138119006861 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 138119006862 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 138119006863 catalytic residues [active] 138119006864 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119006865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119006866 Zn2+ binding site [ion binding]; other site 138119006867 Mg2+ binding site [ion binding]; other site 138119006868 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 138119006869 non-specific DNA binding site [nucleotide binding]; other site 138119006870 salt bridge; other site 138119006871 sequence-specific DNA binding site [nucleotide binding]; other site 138119006872 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 138119006873 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 138119006874 Replication-relaxation; Region: Replic_Relax; pfam13814 138119006875 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 138119006876 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 138119006877 amidase catalytic site [active] 138119006878 Zn binding residues [ion binding]; other site 138119006879 substrate binding site [chemical binding]; other site 138119006880 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 138119006881 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 138119006882 active site 138119006883 DNA binding site [nucleotide binding] 138119006884 Int/Topo IB signature motif; other site 138119006885 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 138119006886 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 138119006887 Baseplate J-like protein; Region: Baseplate_J; cl01294 138119006888 Baseplate J-like protein; Region: Baseplate_J; pfam04865 138119006889 Phage protein D [General function prediction only]; Region: COG3500 138119006890 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 138119006891 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 138119006892 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 138119006893 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 138119006894 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 138119006895 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 138119006896 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119006897 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 138119006898 DNA binding residues [nucleotide binding] 138119006899 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 138119006900 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 138119006901 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 138119006902 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 138119006903 dimer interface [polypeptide binding]; other site 138119006904 ssDNA binding site [nucleotide binding]; other site 138119006905 tetramer (dimer of dimers) interface [polypeptide binding]; other site 138119006906 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 138119006907 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 138119006908 3D domain; Region: 3D; cl01439 138119006909 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 138119006910 Int/Topo IB signature motif; other site 138119006911 LexA repressor; Validated; Region: PRK00215 138119006912 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 138119006913 Catalytic site [active] 138119006914 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 138119006915 Int/Topo IB signature motif; other site 138119006916 hypothetical protein; Provisional; Region: PRK04194 138119006917 FOG: CBS domain [General function prediction only]; Region: COG0517 138119006918 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 138119006919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 138119006920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119006921 NAD(P) binding site [chemical binding]; other site 138119006922 active site 138119006923 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 138119006924 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 138119006925 substrate binding pocket [chemical binding]; other site 138119006926 chain length determination region; other site 138119006927 substrate-Mg2+ binding site; other site 138119006928 catalytic residues [active] 138119006929 aspartate-rich region 1; other site 138119006930 active site lid residues [active] 138119006931 aspartate-rich region 2; other site 138119006932 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 138119006933 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119006934 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119006935 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119006936 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 138119006937 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 138119006938 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 138119006939 active site 138119006940 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 138119006941 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 138119006942 inhibitor-cofactor binding pocket; inhibition site 138119006943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119006944 catalytic residue [active] 138119006945 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 138119006946 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 138119006947 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 138119006948 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 138119006949 FeS/SAM binding site; other site 138119006950 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 138119006951 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 138119006952 dimer interface [polypeptide binding]; other site 138119006953 active site 138119006954 Schiff base residues; other site 138119006955 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 138119006956 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 138119006957 FeS/SAM binding site; other site 138119006958 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 138119006959 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 138119006960 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 138119006961 active site 138119006962 SAM binding site [chemical binding]; other site 138119006963 homodimer interface [polypeptide binding]; other site 138119006964 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 138119006965 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 138119006966 active site 138119006967 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 138119006968 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 138119006969 domain interfaces; other site 138119006970 active site 138119006971 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 138119006972 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 138119006973 tRNA; other site 138119006974 putative tRNA binding site [nucleotide binding]; other site 138119006975 putative NADP binding site [chemical binding]; other site 138119006976 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 138119006977 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 138119006978 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 138119006979 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 138119006980 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 138119006981 ResB-like family; Region: ResB; pfam05140 138119006982 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 138119006983 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 138119006984 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119006985 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 138119006986 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 138119006987 substrate binding pocket [chemical binding]; other site 138119006988 chain length determination region; other site 138119006989 substrate-Mg2+ binding site; other site 138119006990 catalytic residues [active] 138119006991 aspartate-rich region 1; other site 138119006992 active site lid residues [active] 138119006993 aspartate-rich region 2; other site 138119006994 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 138119006995 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 138119006996 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 138119006997 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 138119006998 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 138119006999 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 138119007000 active site 138119007001 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 138119007002 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 138119007003 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 138119007004 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 138119007005 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 138119007006 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 138119007007 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 138119007008 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 138119007009 aspartate kinase; Validated; Region: PRK08373 138119007010 Transcriptional regulator PadR-like family; Region: PadR; cl17335 138119007011 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119007012 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 138119007013 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 138119007014 putative active site [active] 138119007015 putative metal binding site [ion binding]; other site 138119007016 hypothetical protein; Provisional; Region: PRK04435 138119007017 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 138119007018 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 138119007019 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 138119007020 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 138119007021 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 138119007022 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 138119007023 membrane protein; Provisional; Region: PRK14395 138119007024 GTP-binding protein Der; Reviewed; Region: PRK00093 138119007025 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 138119007026 G1 box; other site 138119007027 GTP/Mg2+ binding site [chemical binding]; other site 138119007028 Switch I region; other site 138119007029 G2 box; other site 138119007030 Switch II region; other site 138119007031 G3 box; other site 138119007032 G4 box; other site 138119007033 G5 box; other site 138119007034 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 138119007035 G1 box; other site 138119007036 GTP/Mg2+ binding site [chemical binding]; other site 138119007037 Switch I region; other site 138119007038 G2 box; other site 138119007039 G3 box; other site 138119007040 Switch II region; other site 138119007041 G4 box; other site 138119007042 G5 box; other site 138119007043 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 138119007044 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 138119007045 Protein of unknown function (DUF512); Region: DUF512; pfam04459 138119007046 cell division protein FtsW; Region: ftsW; TIGR02614 138119007047 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 138119007048 LytB protein; Region: LYTB; cl00507 138119007049 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 138119007050 RNA binding site [nucleotide binding]; other site 138119007051 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 138119007052 RNA binding site [nucleotide binding]; other site 138119007053 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 138119007054 RNA binding site [nucleotide binding]; other site 138119007055 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 138119007056 RNA binding site [nucleotide binding]; other site 138119007057 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 138119007058 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 138119007059 putative acyl-acceptor binding pocket; other site 138119007060 cytidylate kinase; Provisional; Region: cmk; PRK00023 138119007061 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 138119007062 CMP-binding site; other site 138119007063 The sites determining sugar specificity; other site 138119007064 CAAX protease self-immunity; Region: Abi; pfam02517 138119007065 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119007066 L-lactate permease; Region: Lactate_perm; cl00701 138119007067 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119007068 L-lactate permease; Region: Lactate_perm; cl00701 138119007069 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 138119007070 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 138119007071 hinge; other site 138119007072 active site 138119007073 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 138119007074 prephenate dehydrogenase; Validated; Region: PRK08507 138119007075 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 138119007076 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 138119007077 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 138119007078 homotrimer interaction site [polypeptide binding]; other site 138119007079 active site 138119007080 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 138119007081 RNA binding site [nucleotide binding]; other site 138119007082 hexamer interface [polypeptide binding]; other site 138119007083 Histidine-zinc binding site [chemical binding]; other site 138119007084 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 138119007085 flavoprotein, HI0933 family; Region: TIGR00275 138119007086 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119007087 Double zinc ribbon; Region: DZR; pfam12773 138119007088 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 138119007089 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119007090 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 138119007091 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119007092 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119007093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119007094 DNA-binding site [nucleotide binding]; DNA binding site 138119007095 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 138119007096 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119007097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119007098 DNA-binding site [nucleotide binding]; DNA binding site 138119007099 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 138119007100 L-lactate permease; Region: Lactate_perm; cl00701 138119007101 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119007102 L-lactate permease; Region: Lactate_perm; cl00701 138119007103 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 138119007104 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 138119007105 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 138119007106 RNA binding surface [nucleotide binding]; other site 138119007107 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 138119007108 active site 138119007109 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 138119007110 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 138119007111 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 138119007112 Ligand binding site; other site 138119007113 Putative Catalytic site; other site 138119007114 DXD motif; other site 138119007115 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 138119007116 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 138119007117 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 138119007118 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 138119007119 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 138119007120 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 138119007121 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 138119007122 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 138119007123 active site 138119007124 HIGH motif; other site 138119007125 dimer interface [polypeptide binding]; other site 138119007126 KMSKS motif; other site 138119007127 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 138119007128 Peptidase family M50; Region: Peptidase_M50; pfam02163 138119007129 active site 138119007130 putative substrate binding region [chemical binding]; other site 138119007131 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 138119007132 DHH family; Region: DHH; pfam01368 138119007133 FOG: CBS domain [General function prediction only]; Region: COG0517 138119007134 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 138119007135 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 138119007136 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 138119007137 active site 138119007138 NTP binding site [chemical binding]; other site 138119007139 metal binding triad [ion binding]; metal-binding site 138119007140 Transcriptional regulator [Transcription]; Region: LytR; COG1316 138119007141 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 138119007142 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119007143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 138119007144 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 138119007145 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119007146 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 138119007147 stage V sporulation protein AD; Validated; Region: PRK08304 138119007148 stage V sporulation protein AD; Provisional; Region: PRK12404 138119007149 SpoVA protein; Region: SpoVA; cl04298 138119007150 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 138119007151 anti sigma factor interaction site; other site 138119007152 regulatory phosphorylation site [posttranslational modification]; other site 138119007153 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 138119007154 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 138119007155 ATP binding site [chemical binding]; other site 138119007156 Mg2+ binding site [ion binding]; other site 138119007157 G-X-G motif; other site 138119007158 sporulation sigma factor SigF; Validated; Region: PRK05572 138119007159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119007160 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138119007161 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 138119007162 DNA binding residues [nucleotide binding] 138119007163 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 138119007164 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119007165 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 138119007166 CoA binding domain; Region: CoA_binding_2; pfam13380 138119007167 RelB antitoxin; Region: RelB; cl01171 138119007168 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 138119007169 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 138119007170 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 138119007171 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 138119007172 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 138119007173 purine nucleoside phosphorylase; Provisional; Region: PRK08202 138119007174 phosphopentomutase; Provisional; Region: PRK05362 138119007175 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 138119007176 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 138119007177 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 138119007178 active site 138119007179 Int/Topo IB signature motif; other site 138119007180 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119007181 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 138119007182 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 138119007183 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 138119007184 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 138119007185 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119007186 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 138119007187 acyl-activating enzyme (AAE) consensus motif; other site 138119007188 putative AMP binding site [chemical binding]; other site 138119007189 putative active site [active] 138119007190 putative CoA binding site [chemical binding]; other site 138119007191 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119007192 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 138119007193 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 138119007194 active site 138119007195 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 138119007196 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 138119007197 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 138119007198 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 138119007199 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 138119007200 G1 box; other site 138119007201 GTP/Mg2+ binding site [chemical binding]; other site 138119007202 Switch I region; other site 138119007203 G2 box; other site 138119007204 G3 box; other site 138119007205 Switch II region; other site 138119007206 G4 box; other site 138119007207 G5 box; other site 138119007208 Nucleoside recognition; Region: Gate; pfam07670 138119007209 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 138119007210 Nucleoside recognition; Region: Gate; pfam07670 138119007211 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 138119007212 Integral membrane protein DUF95; Region: DUF95; cl00572 138119007213 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 138119007214 Y-family of DNA polymerases; Region: PolY; cl12025 138119007215 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 138119007216 dimer interface [polypeptide binding]; other site 138119007217 ADP-ribose binding site [chemical binding]; other site 138119007218 active site 138119007219 nudix motif; other site 138119007220 metal binding site [ion binding]; metal-binding site 138119007221 Beta propeller domain; Region: Beta_propel; pfam09826 138119007222 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119007223 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 138119007224 non-specific DNA binding site [nucleotide binding]; other site 138119007225 salt bridge; other site 138119007226 sequence-specific DNA binding site [nucleotide binding]; other site 138119007227 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119007228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119007229 metal binding site [ion binding]; metal-binding site 138119007230 active site 138119007231 I-site; other site 138119007232 RNA polymerase sigma factor; Provisional; Region: PRK11924 138119007233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119007234 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 138119007235 DNA binding residues [nucleotide binding] 138119007236 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119007237 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 138119007238 S-adenosylmethionine binding site [chemical binding]; other site 138119007239 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119007240 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119007241 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119007242 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119007243 molybdopterin cofactor binding site; other site 138119007244 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119007245 putative molybdopterin cofactor binding site; other site 138119007246 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 138119007247 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119007248 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119007249 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119007250 Walker A/P-loop; other site 138119007251 ATP binding site [chemical binding]; other site 138119007252 Q-loop/lid; other site 138119007253 ABC transporter signature motif; other site 138119007254 Walker B; other site 138119007255 D-loop; other site 138119007256 H-loop/switch region; other site 138119007257 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119007258 FtsX-like permease family; Region: FtsX; pfam02687 138119007259 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 138119007260 HAMP domain; Region: HAMP; pfam00672 138119007261 dimerization interface [polypeptide binding]; other site 138119007262 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119007263 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119007264 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119007265 dimer interface [polypeptide binding]; other site 138119007266 putative CheW interface [polypeptide binding]; other site 138119007267 methionine aminopeptidase; Provisional; Region: PRK12318 138119007268 SEC-C motif; Region: SEC-C; pfam02810 138119007269 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 138119007270 active site 138119007271 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119007272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119007273 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 138119007274 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 138119007275 active site 138119007276 phosphorylation site [posttranslational modification] 138119007277 intermolecular recognition site; other site 138119007278 dimerization interface [polypeptide binding]; other site 138119007279 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 138119007280 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 138119007281 protein binding site [polypeptide binding]; other site 138119007282 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 138119007283 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 138119007284 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 138119007285 Walker A/P-loop; other site 138119007286 ATP binding site [chemical binding]; other site 138119007287 Q-loop/lid; other site 138119007288 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 138119007289 ABC transporter signature motif; other site 138119007290 Walker B; other site 138119007291 D-loop; other site 138119007292 H-loop/switch region; other site 138119007293 arginine repressor; Provisional; Region: PRK04280 138119007294 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 138119007295 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 138119007296 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119007297 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 138119007298 S-adenosylmethionine binding site [chemical binding]; other site 138119007299 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 138119007300 ATP-NAD kinase; Region: NAD_kinase; pfam01513 138119007301 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 138119007302 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 138119007303 RNA binding surface [nucleotide binding]; other site 138119007304 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 138119007305 S-adenosylmethionine binding site [chemical binding]; other site 138119007306 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 138119007307 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 138119007308 TPP-binding site; other site 138119007309 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 138119007310 PYR/PP interface [polypeptide binding]; other site 138119007311 dimer interface [polypeptide binding]; other site 138119007312 TPP binding site [chemical binding]; other site 138119007313 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138119007314 Divergent PAP2 family; Region: DUF212; pfam02681 138119007315 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 138119007316 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 138119007317 substrate binding pocket [chemical binding]; other site 138119007318 chain length determination region; other site 138119007319 substrate-Mg2+ binding site; other site 138119007320 catalytic residues [active] 138119007321 aspartate-rich region 1; other site 138119007322 active site lid residues [active] 138119007323 aspartate-rich region 2; other site 138119007324 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 138119007325 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 138119007326 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 138119007327 generic binding surface II; other site 138119007328 generic binding surface I; other site 138119007329 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 138119007330 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 138119007331 Cl binding site [ion binding]; other site 138119007332 oligomer interface [polypeptide binding]; other site 138119007333 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 138119007334 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 138119007335 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 138119007336 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 138119007337 homodimer interface [polypeptide binding]; other site 138119007338 NADP binding site [chemical binding]; other site 138119007339 substrate binding site [chemical binding]; other site 138119007340 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 138119007341 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 138119007342 DNA binding residues [nucleotide binding] 138119007343 dimerization interface [polypeptide binding]; other site 138119007344 putative oxidoreductase; Provisional; Region: PRK12831 138119007345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119007346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119007347 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 138119007348 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 138119007349 FAD binding pocket [chemical binding]; other site 138119007350 FAD binding motif [chemical binding]; other site 138119007351 phosphate binding motif [ion binding]; other site 138119007352 beta-alpha-beta structure motif; other site 138119007353 NAD binding pocket [chemical binding]; other site 138119007354 Iron coordination center [ion binding]; other site 138119007355 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 138119007356 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 138119007357 putative RNA binding site [nucleotide binding]; other site 138119007358 Asp23 family; Region: Asp23; pfam03780 138119007359 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 138119007360 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119007361 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 138119007362 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 138119007363 pyruvate carboxylase subunit B; Validated; Region: PRK09282 138119007364 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 138119007365 active site 138119007366 catalytic residues [active] 138119007367 metal binding site [ion binding]; metal-binding site 138119007368 homodimer binding site [polypeptide binding]; other site 138119007369 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 138119007370 carboxyltransferase (CT) interaction site; other site 138119007371 biotinylation site [posttranslational modification]; other site 138119007372 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 138119007373 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 138119007374 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 138119007375 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 138119007376 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 138119007377 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 138119007378 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 138119007379 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119007380 Walker A motif; other site 138119007381 ATP binding site [chemical binding]; other site 138119007382 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 138119007383 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119007384 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 138119007385 elongation factor P; Validated; Region: PRK00529 138119007386 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 138119007387 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 138119007388 RNA binding site [nucleotide binding]; other site 138119007389 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 138119007390 RNA binding site [nucleotide binding]; other site 138119007391 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 138119007392 Dehydroquinase class II; Region: DHquinase_II; pfam01220 138119007393 trimer interface [polypeptide binding]; other site 138119007394 active site 138119007395 dimer interface [polypeptide binding]; other site 138119007396 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119007397 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 138119007398 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 138119007399 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 138119007400 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 138119007401 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 138119007402 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 138119007403 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 138119007404 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 138119007405 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 138119007406 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 138119007407 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 138119007408 Walker A motif; other site 138119007409 ATP binding site [chemical binding]; other site 138119007410 Walker B motif; other site 138119007411 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 138119007412 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 138119007413 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 138119007414 Walker A motif; other site 138119007415 ATP binding site [chemical binding]; other site 138119007416 Walker B motif; other site 138119007417 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 138119007418 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 138119007419 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 138119007420 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 138119007421 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 138119007422 active site 138119007423 dimer interface [polypeptide binding]; other site 138119007424 metal binding site [ion binding]; metal-binding site 138119007425 shikimate kinase; Provisional; Region: PRK13947 138119007426 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 138119007427 ADP binding site [chemical binding]; other site 138119007428 magnesium binding site [ion binding]; other site 138119007429 putative shikimate binding site; other site 138119007430 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 138119007431 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 138119007432 Tetramer interface [polypeptide binding]; other site 138119007433 active site 138119007434 FMN-binding site [chemical binding]; other site 138119007435 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 138119007436 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 138119007437 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 138119007438 shikimate binding site; other site 138119007439 NAD(P) binding site [chemical binding]; other site 138119007440 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 138119007441 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 138119007442 active site 138119007443 motif I; other site 138119007444 motif II; other site 138119007445 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 138119007446 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 138119007447 AzlC protein; Region: AzlC; cl00570 138119007448 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 138119007449 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 138119007450 putative DNA binding site [nucleotide binding]; other site 138119007451 putative Zn2+ binding site [ion binding]; other site 138119007452 AsnC family; Region: AsnC_trans_reg; pfam01037 138119007453 phosphate butyryltransferase; Validated; Region: PRK05805 138119007454 butyrate kinase; Provisional; Region: PRK03011 138119007455 putative acyltransferase; Provisional; Region: PRK05790 138119007456 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119007457 dimer interface [polypeptide binding]; other site 138119007458 active site 138119007459 sporulation sigma factor SigK; Reviewed; Region: PRK05803 138119007460 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119007461 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 138119007462 DNA binding residues [nucleotide binding] 138119007463 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 138119007464 Bacterial Ig-like domain 2; Region: BID_2; smart00635 138119007465 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 138119007466 aromatic chitin/cellulose binding site residues [chemical binding]; other site 138119007467 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 138119007468 aromatic chitin/cellulose binding site residues [chemical binding]; other site 138119007469 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 138119007470 aromatic chitin/cellulose binding site residues [chemical binding]; other site 138119007471 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 138119007472 aromatic chitin/cellulose binding site residues [chemical binding]; other site 138119007473 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 138119007474 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 138119007475 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 138119007476 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 138119007477 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 138119007478 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 138119007479 Walker A motif; other site 138119007480 ATP binding site [chemical binding]; other site 138119007481 Walker B motif; other site 138119007482 putative protease; Provisional; Region: PRK15452 138119007483 Peptidase family U32; Region: Peptidase_U32; pfam01136 138119007484 YceG-like family; Region: YceG; pfam02618 138119007485 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 138119007486 dimerization interface [polypeptide binding]; other site 138119007487 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 138119007488 VanW like protein; Region: VanW; pfam04294 138119007489 G5 domain; Region: G5; pfam07501 138119007490 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 138119007491 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 138119007492 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 138119007493 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 138119007494 active site 138119007495 catalytic tetrad [active] 138119007496 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119007497 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119007498 hypothetical protein; Provisional; Region: PRK05473 138119007499 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 138119007500 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 138119007501 motif 1; other site 138119007502 active site 138119007503 motif 2; other site 138119007504 motif 3; other site 138119007505 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 138119007506 DHHA1 domain; Region: DHHA1; pfam02272 138119007507 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 138119007508 Domain of unknown function DUF20; Region: UPF0118; pfam01594 138119007509 PRC-barrel domain; Region: PRC; pfam05239 138119007510 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 138119007511 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 138119007512 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 138119007513 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 138119007514 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 138119007515 trimerization site [polypeptide binding]; other site 138119007516 active site 138119007517 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 138119007518 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 138119007519 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119007520 catalytic residue [active] 138119007521 Transcriptional regulator; Region: Rrf2; cl17282 138119007522 Rrf2 family protein; Region: rrf2_super; TIGR00738 138119007523 recombination factor protein RarA; Reviewed; Region: PRK13342 138119007524 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 138119007525 Walker A motif; other site 138119007526 ATP binding site [chemical binding]; other site 138119007527 Walker B motif; other site 138119007528 arginine finger; other site 138119007529 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 138119007530 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 138119007531 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 138119007532 catalytic residues [active] 138119007533 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 138119007534 putative homodimer interface [polypeptide binding]; other site 138119007535 putative homotetramer interface [polypeptide binding]; other site 138119007536 putative allosteric switch controlling residues; other site 138119007537 putative metal binding site [ion binding]; other site 138119007538 putative homodimer-homodimer interface [polypeptide binding]; other site 138119007539 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 138119007540 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 138119007541 dimer interface [polypeptide binding]; other site 138119007542 anticodon binding site; other site 138119007543 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 138119007544 homodimer interface [polypeptide binding]; other site 138119007545 motif 1; other site 138119007546 active site 138119007547 motif 2; other site 138119007548 GAD domain; Region: GAD; pfam02938 138119007549 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 138119007550 motif 3; other site 138119007551 histidyl-tRNA synthetase; Region: hisS; TIGR00442 138119007552 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 138119007553 dimer interface [polypeptide binding]; other site 138119007554 motif 1; other site 138119007555 active site 138119007556 motif 2; other site 138119007557 motif 3; other site 138119007558 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 138119007559 anticodon binding site; other site 138119007560 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 138119007561 oligomer interface [polypeptide binding]; other site 138119007562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119007563 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 138119007564 dimer interface [polypeptide binding]; other site 138119007565 phosphorylation site [posttranslational modification] 138119007566 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 138119007567 ATP binding site [chemical binding]; other site 138119007568 Mg2+ binding site [ion binding]; other site 138119007569 G-X-G motif; other site 138119007570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119007571 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 138119007572 active site 138119007573 phosphorylation site [posttranslational modification] 138119007574 intermolecular recognition site; other site 138119007575 dimerization interface [polypeptide binding]; other site 138119007576 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 138119007577 DNA binding site [nucleotide binding] 138119007578 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 138119007579 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119007580 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 138119007581 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 138119007582 Walker A/P-loop; other site 138119007583 ATP binding site [chemical binding]; other site 138119007584 Q-loop/lid; other site 138119007585 ABC transporter signature motif; other site 138119007586 Walker B; other site 138119007587 D-loop; other site 138119007588 H-loop/switch region; other site 138119007589 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 138119007590 dimer interface [polypeptide binding]; other site 138119007591 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 138119007592 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 138119007593 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 138119007594 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119007595 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 138119007596 DNA binding residues [nucleotide binding] 138119007597 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 138119007598 active site 138119007599 NTP binding site [chemical binding]; other site 138119007600 metal binding triad [ion binding]; metal-binding site 138119007601 antibiotic binding site [chemical binding]; other site 138119007602 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 138119007603 active site 138119007604 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 138119007605 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 138119007606 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 138119007607 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 138119007608 putative active site [active] 138119007609 PhoH-like protein; Region: PhoH; pfam02562 138119007610 Protein of unknown function (DUF458); Region: DUF458; pfam04308 138119007611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119007612 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 138119007613 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 138119007614 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 138119007615 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 138119007616 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 138119007617 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 138119007618 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 138119007619 FeS/SAM binding site; other site 138119007620 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119007621 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 138119007622 putative active site [active] 138119007623 dimerization interface [polypeptide binding]; other site 138119007624 putative tRNAtyr binding site [nucleotide binding]; other site 138119007625 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 138119007626 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119007627 Zn2+ binding site [ion binding]; other site 138119007628 Mg2+ binding site [ion binding]; other site 138119007629 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 138119007630 synthetase active site [active] 138119007631 NTP binding site [chemical binding]; other site 138119007632 metal binding site [ion binding]; metal-binding site 138119007633 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 138119007634 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 138119007635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119007636 active site 138119007637 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 138119007638 DHH family; Region: DHH; pfam01368 138119007639 DHHA1 domain; Region: DHHA1; pfam02272 138119007640 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 138119007641 putative active site [active] 138119007642 putative metal binding site [ion binding]; other site 138119007643 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 138119007644 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 138119007645 putative valine binding site [chemical binding]; other site 138119007646 dimer interface [polypeptide binding]; other site 138119007647 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 138119007648 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 138119007649 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119007650 PYR/PP interface [polypeptide binding]; other site 138119007651 dimer interface [polypeptide binding]; other site 138119007652 TPP binding site [chemical binding]; other site 138119007653 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119007654 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 138119007655 TPP-binding site [chemical binding]; other site 138119007656 dimer interface [polypeptide binding]; other site 138119007657 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 138119007658 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 138119007659 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 138119007660 Protein export membrane protein; Region: SecD_SecF; pfam02355 138119007661 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119007662 Zn2+ binding site [ion binding]; other site 138119007663 Mg2+ binding site [ion binding]; other site 138119007664 EcsC protein family; Region: EcsC; pfam12787 138119007665 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 138119007666 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 138119007667 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 138119007668 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 138119007669 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 138119007670 Stage II sporulation protein; Region: SpoIID; pfam08486 138119007671 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 138119007672 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 138119007673 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 138119007674 Walker A motif; other site 138119007675 ATP binding site [chemical binding]; other site 138119007676 Walker B motif; other site 138119007677 arginine finger; other site 138119007678 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 138119007679 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 138119007680 RuvA N terminal domain; Region: RuvA_N; pfam01330 138119007681 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 138119007682 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...; Region: RuvC_resolvase; cd00529 138119007683 active site 138119007684 putative DNA-binding cleft [nucleotide binding]; other site 138119007685 dimer interface [polypeptide binding]; other site 138119007686 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 138119007687 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119007688 hypothetical protein; Validated; Region: PRK00110 138119007689 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 138119007690 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 138119007691 Cytochrome c552; Region: Cytochrom_C552; pfam02335 138119007692 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 138119007693 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 138119007694 dimerization interface [polypeptide binding]; other site 138119007695 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 138119007696 ATP binding site [chemical binding]; other site 138119007697 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 138119007698 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 138119007699 HupF/HypC family; Region: HupF_HypC; pfam01455 138119007700 Acylphosphatase; Region: Acylphosphatase; pfam00708 138119007701 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 138119007702 HypF finger; Region: zf-HYPF; pfam07503 138119007703 HypF finger; Region: zf-HYPF; pfam07503 138119007704 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 138119007705 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 138119007706 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119007707 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 138119007708 acyl-activating enzyme (AAE) consensus motif; other site 138119007709 putative AMP binding site [chemical binding]; other site 138119007710 putative active site [active] 138119007711 putative CoA binding site [chemical binding]; other site 138119007712 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 138119007713 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 138119007714 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 138119007715 substrate binding pocket [chemical binding]; other site 138119007716 membrane-bound complex binding site; other site 138119007717 hinge residues; other site 138119007718 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119007719 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119007720 Walker A/P-loop; other site 138119007721 ATP binding site [chemical binding]; other site 138119007722 Q-loop/lid; other site 138119007723 ABC transporter signature motif; other site 138119007724 Walker B; other site 138119007725 D-loop; other site 138119007726 H-loop/switch region; other site 138119007727 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119007728 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 138119007729 dimer interface [polypeptide binding]; other site 138119007730 conserved gate region; other site 138119007731 putative PBP binding loops; other site 138119007732 ABC-ATPase subunit interface; other site 138119007733 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 138119007734 Acyltransferase family; Region: Acyl_transf_3; pfam01757 138119007735 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119007736 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 138119007737 dimer interface [polypeptide binding]; other site 138119007738 active site 138119007739 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119007740 4Fe-4S binding domain; Region: Fer4; cl02805 138119007741 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119007742 Cysteine-rich domain; Region: CCG; pfam02754 138119007743 Cysteine-rich domain; Region: CCG; pfam02754 138119007744 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119007745 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 138119007746 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119007747 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 138119007748 Ligand binding site [chemical binding]; other site 138119007749 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119007750 enoyl-CoA hydratase; Provisional; Region: PRK06688 138119007751 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 138119007752 substrate binding site [chemical binding]; other site 138119007753 oxyanion hole (OAH) forming residues; other site 138119007754 trimer interface [polypeptide binding]; other site 138119007755 TIGR04076 family protein; Region: TIGR04076 138119007756 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 138119007757 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119007758 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119007759 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 138119007760 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119007761 active site 138119007762 benzoate transport; Region: 2A0115; TIGR00895 138119007763 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 138119007764 putative substrate translocation pore; other site 138119007765 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 138119007766 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 138119007767 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119007768 benzoate transport; Region: 2A0115; TIGR00895 138119007769 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 138119007770 putative substrate translocation pore; other site 138119007771 Propionate catabolism activator; Region: PrpR_N; pfam06506 138119007772 PAS domain; Region: PAS; smart00091 138119007773 PAS domain; Region: PAS_9; pfam13426 138119007774 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 138119007775 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119007776 Walker A motif; other site 138119007777 ATP binding site [chemical binding]; other site 138119007778 Walker B motif; other site 138119007779 arginine finger; other site 138119007780 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 138119007781 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119007782 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 138119007783 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 138119007784 dihydrodipicolinate synthase; Region: dapA; TIGR00674 138119007785 dimer interface [polypeptide binding]; other site 138119007786 active site 138119007787 catalytic residue [active] 138119007788 aspartate kinase I; Reviewed; Region: PRK08210 138119007789 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 138119007790 putative catalytic residues [active] 138119007791 putative nucleotide binding site [chemical binding]; other site 138119007792 putative aspartate binding site [chemical binding]; other site 138119007793 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 138119007794 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119007795 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 138119007796 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 138119007797 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 138119007798 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 138119007799 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 138119007800 NAD binding site [chemical binding]; other site 138119007801 dihydrodipicolinate reductase; Provisional; Region: PRK00048 138119007802 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 138119007803 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 138119007804 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 138119007805 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 138119007806 trimer interface [polypeptide binding]; other site 138119007807 active site 138119007808 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 138119007809 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 138119007810 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 138119007811 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 138119007812 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119007813 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 138119007814 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 138119007815 NodB motif; other site 138119007816 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 138119007817 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 138119007818 RNase E interface [polypeptide binding]; other site 138119007819 trimer interface [polypeptide binding]; other site 138119007820 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 138119007821 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 138119007822 RNase E interface [polypeptide binding]; other site 138119007823 trimer interface [polypeptide binding]; other site 138119007824 active site 138119007825 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 138119007826 putative nucleic acid binding region [nucleotide binding]; other site 138119007827 G-X-X-G motif; other site 138119007828 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 138119007829 RNA binding site [nucleotide binding]; other site 138119007830 domain interface; other site 138119007831 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119007832 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119007833 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 138119007834 16S/18S rRNA binding site [nucleotide binding]; other site 138119007835 S13e-L30e interaction site [polypeptide binding]; other site 138119007836 25S rRNA binding site [nucleotide binding]; other site 138119007837 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 138119007838 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 138119007839 active site 138119007840 Riboflavin kinase; Region: Flavokinase; pfam01687 138119007841 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 138119007842 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 138119007843 RNA binding site [nucleotide binding]; other site 138119007844 active site 138119007845 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 138119007846 DHH family; Region: DHH; pfam01368 138119007847 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 138119007848 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 138119007849 Invertebrate innate immunity transcript family; Region: Innate_immun; pfam12782 138119007850 translation initiation factor IF-2; Region: IF-2; TIGR00487 138119007851 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 138119007852 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 138119007853 G1 box; other site 138119007854 putative GEF interaction site [polypeptide binding]; other site 138119007855 GTP/Mg2+ binding site [chemical binding]; other site 138119007856 Switch I region; other site 138119007857 G2 box; other site 138119007858 G3 box; other site 138119007859 Switch II region; other site 138119007860 G4 box; other site 138119007861 G5 box; other site 138119007862 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 138119007863 Translation-initiation factor 2; Region: IF-2; pfam11987 138119007864 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 138119007865 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 138119007866 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 138119007867 putative RNA binding cleft [nucleotide binding]; other site 138119007868 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 138119007869 NusA N-terminal domain; Region: NusA_N; pfam08529 138119007870 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 138119007871 RNA binding site [nucleotide binding]; other site 138119007872 homodimer interface [polypeptide binding]; other site 138119007873 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 138119007874 G-X-X-G motif; other site 138119007875 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 138119007876 G-X-X-G motif; other site 138119007877 ribosome maturation protein RimP; Reviewed; Region: PRK00092 138119007878 Sm and related proteins; Region: Sm_like; cl00259 138119007879 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 138119007880 putative oligomer interface [polypeptide binding]; other site 138119007881 putative RNA binding site [nucleotide binding]; other site 138119007882 Putative amidase domain; Region: Amidase_6; pfam12671 138119007883 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 138119007884 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 138119007885 active site 138119007886 phosphorylation site [posttranslational modification] 138119007887 intermolecular recognition site; other site 138119007888 dimerization interface [polypeptide binding]; other site 138119007889 LytTr DNA-binding domain; Region: LytTR; smart00850 138119007890 Accessory gene regulator B; Region: AgrB; pfam04647 138119007891 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 138119007892 ATP binding site [chemical binding]; other site 138119007893 Mg2+ binding site [ion binding]; other site 138119007894 G-X-G motif; other site 138119007895 AAA domain; Region: AAA_14; pfam13173 138119007896 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119007897 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 138119007898 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 138119007899 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 138119007900 FeS/SAM binding site; other site 138119007901 prolyl-tRNA synthetase; Provisional; Region: PRK09194 138119007902 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 138119007903 dimer interface [polypeptide binding]; other site 138119007904 motif 1; other site 138119007905 active site 138119007906 motif 2; other site 138119007907 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 138119007908 putative deacylase active site [active] 138119007909 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 138119007910 active site 138119007911 motif 3; other site 138119007912 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 138119007913 anticodon binding site; other site 138119007914 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 138119007915 GcpE protein; Region: GcpE; pfam04551 138119007916 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 138119007917 RIP metalloprotease RseP; Region: TIGR00054 138119007918 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 138119007919 active site 138119007920 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 138119007921 protein binding site [polypeptide binding]; other site 138119007922 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 138119007923 putative substrate binding region [chemical binding]; other site 138119007924 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 138119007925 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 138119007926 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 138119007927 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 138119007928 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 138119007929 Domain of unknown function DUF20; Region: UPF0118; pfam01594 138119007930 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 138119007931 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 138119007932 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 138119007933 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 138119007934 catalytic residue [active] 138119007935 putative FPP diphosphate binding site; other site 138119007936 putative FPP binding hydrophobic cleft; other site 138119007937 dimer interface [polypeptide binding]; other site 138119007938 putative IPP diphosphate binding site; other site 138119007939 ribosome recycling factor; Reviewed; Region: frr; PRK00083 138119007940 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 138119007941 hinge region; other site 138119007942 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 138119007943 putative nucleotide binding site [chemical binding]; other site 138119007944 uridine monophosphate binding site [chemical binding]; other site 138119007945 homohexameric interface [polypeptide binding]; other site 138119007946 elongation factor Ts; Reviewed; Region: tsf; PRK12332 138119007947 UBA/TS-N domain; Region: UBA; pfam00627 138119007948 Elongation factor TS; Region: EF_TS; pfam00889 138119007949 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 138119007950 rRNA interaction site [nucleotide binding]; other site 138119007951 S8 interaction site; other site 138119007952 putative laminin-1 binding site; other site 138119007953 transcriptional repressor CodY; Validated; Region: PRK04158 138119007954 CodY GAF-like domain; Region: CodY; pfam06018 138119007955 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 138119007956 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 138119007957 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 138119007958 Walker A motif; other site 138119007959 ATP binding site [chemical binding]; other site 138119007960 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 138119007961 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 138119007962 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 138119007963 active site 138119007964 HslU subunit interaction site [polypeptide binding]; other site 138119007965 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 138119007966 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 138119007967 active site 138119007968 Int/Topo IB signature motif; other site 138119007969 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 138119007970 Glucose inhibited division protein A; Region: GIDA; pfam01134 138119007971 DNA topoisomerase I; Validated; Region: PRK05582 138119007972 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 138119007973 active site 138119007974 interdomain interaction site; other site 138119007975 putative metal-binding site [ion binding]; other site 138119007976 nucleotide binding site [chemical binding]; other site 138119007977 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 138119007978 domain I; other site 138119007979 DNA binding groove [nucleotide binding] 138119007980 phosphate binding site [ion binding]; other site 138119007981 domain II; other site 138119007982 domain III; other site 138119007983 nucleotide binding site [chemical binding]; other site 138119007984 catalytic site [active] 138119007985 domain IV; other site 138119007986 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138119007987 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138119007988 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 138119007989 DNA protecting protein DprA; Region: dprA; TIGR00732 138119007990 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 138119007991 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 138119007992 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 138119007993 putative DNA binding site [nucleotide binding]; other site 138119007994 putative homodimer interface [polypeptide binding]; other site 138119007995 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 138119007996 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119007997 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119007998 Walker A/P-loop; other site 138119007999 ATP binding site [chemical binding]; other site 138119008000 Q-loop/lid; other site 138119008001 ABC transporter signature motif; other site 138119008002 Walker B; other site 138119008003 D-loop; other site 138119008004 H-loop/switch region; other site 138119008005 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119008006 FtsX-like permease family; Region: FtsX; pfam02687 138119008007 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 138119008008 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 138119008009 AP (apurinic/apyrimidinic) site pocket; other site 138119008010 DNA interaction; other site 138119008011 Metal-binding active site; metal-binding site 138119008012 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 138119008013 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 138119008014 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 138119008015 putative dimer interface [polypeptide binding]; other site 138119008016 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 138119008017 metal-binding site [ion binding] 138119008018 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 138119008019 metal-binding site [ion binding] 138119008020 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 138119008021 metal-binding site [ion binding] 138119008022 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 138119008023 metal-binding site [ion binding] 138119008024 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119008025 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 138119008026 metal-binding site [ion binding] 138119008027 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119008028 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 138119008029 motif II; other site 138119008030 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 138119008031 putative homodimer interface [polypeptide binding]; other site 138119008032 putative homotetramer interface [polypeptide binding]; other site 138119008033 allosteric switch controlling residues; other site 138119008034 putative metal binding site [ion binding]; other site 138119008035 putative homodimer-homodimer interface [polypeptide binding]; other site 138119008036 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 138119008037 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 138119008038 UbiA prenyltransferase family; Region: UbiA; pfam01040 138119008039 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 138119008040 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 138119008041 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 138119008042 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 138119008043 Walker A motif; other site 138119008044 ATP binding site [chemical binding]; other site 138119008045 Walker B motif; other site 138119008046 arginine finger; other site 138119008047 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 138119008048 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 138119008049 tail tubular protein A; Region: PHA00428 138119008050 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119008051 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119008052 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119008053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119008054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119008055 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119008056 dimerization interface [polypeptide binding]; other site 138119008057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119008058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119008059 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119008060 dimerization interface [polypeptide binding]; other site 138119008061 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119008062 dimerization interface [polypeptide binding]; other site 138119008063 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119008064 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 138119008065 dimer interface [polypeptide binding]; other site 138119008066 phosphorylation site [posttranslational modification] 138119008067 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 138119008068 ATP binding site [chemical binding]; other site 138119008069 Mg2+ binding site [ion binding]; other site 138119008070 G-X-G motif; other site 138119008071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119008072 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 138119008073 active site 138119008074 phosphorylation site [posttranslational modification] 138119008075 intermolecular recognition site; other site 138119008076 dimerization interface [polypeptide binding]; other site 138119008077 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 138119008078 DNA binding site [nucleotide binding] 138119008079 hypothetical protein; Reviewed; Region: PRK12497 138119008080 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 138119008081 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119008082 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 138119008083 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119008084 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 138119008085 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 138119008086 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119008087 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 138119008088 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; pfam00499 138119008089 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 138119008090 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 138119008091 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 138119008092 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 138119008093 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 138119008094 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 138119008095 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 138119008096 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 138119008097 NADH dehydrogenase subunit B; Validated; Region: PRK06411 138119008098 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 138119008099 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 138119008100 RNA/DNA hybrid binding site [nucleotide binding]; other site 138119008101 active site 138119008102 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 138119008103 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 138119008104 GTP/Mg2+ binding site [chemical binding]; other site 138119008105 G4 box; other site 138119008106 G5 box; other site 138119008107 G1 box; other site 138119008108 Switch I region; other site 138119008109 G2 box; other site 138119008110 G3 box; other site 138119008111 Switch II region; other site 138119008112 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 138119008113 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 138119008114 Catalytic site [active] 138119008115 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 138119008116 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 138119008117 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 138119008118 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 138119008119 RimM N-terminal domain; Region: RimM; pfam01782 138119008120 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 138119008121 putative active site [active] 138119008122 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 138119008123 hypothetical protein; Provisional; Region: PRK00468 138119008124 G-X-X-G motif; other site 138119008125 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 138119008126 signal recognition particle protein; Provisional; Region: PRK10867 138119008127 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 138119008128 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 138119008129 P loop; other site 138119008130 GTP binding site [chemical binding]; other site 138119008131 Signal peptide binding domain; Region: SRP_SPB; pfam02978 138119008132 putative DNA-binding protein; Validated; Region: PRK00118 138119008133 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 138119008134 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 138119008135 active site 138119008136 putative substrate binding pocket [chemical binding]; other site 138119008137 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 138119008138 intersubunit interface [polypeptide binding]; other site 138119008139 active site 138119008140 Zn2+ binding site [ion binding]; other site 138119008141 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 138119008142 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 138119008143 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 138119008144 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 138119008145 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 138119008146 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 138119008147 GTP binding site [chemical binding]; other site 138119008148 L-aspartate oxidase; Provisional; Region: PRK06175 138119008149 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119008150 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119008151 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 138119008152 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119008153 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 138119008154 Nucleoside recognition; Region: Gate; pfam07670 138119008155 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 138119008156 Nucleoside recognition; Region: Gate; pfam07670 138119008157 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 138119008158 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 138119008159 G1 box; other site 138119008160 GTP/Mg2+ binding site [chemical binding]; other site 138119008161 Switch I region; other site 138119008162 G2 box; other site 138119008163 G3 box; other site 138119008164 Switch II region; other site 138119008165 G4 box; other site 138119008166 G5 box; other site 138119008167 FeoA domain; Region: FeoA; pfam04023 138119008168 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119008169 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119008170 dimerization interface [polypeptide binding]; other site 138119008171 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119008172 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119008173 dimer interface [polypeptide binding]; other site 138119008174 putative CheW interface [polypeptide binding]; other site 138119008175 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 138119008176 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 138119008177 manganese transport transcriptional regulator; Provisional; Region: PRK03902 138119008178 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 138119008179 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119008180 catalytic loop [active] 138119008181 iron binding site [ion binding]; other site 138119008182 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 138119008183 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119008184 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119008185 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 138119008186 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 138119008187 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119008188 FMN-binding domain; Region: FMN_bind; pfam04205 138119008189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119008190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119008191 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119008192 dimerization interface [polypeptide binding]; other site 138119008193 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119008194 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119008195 dimer interface [polypeptide binding]; other site 138119008196 putative CheW interface [polypeptide binding]; other site 138119008197 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 138119008198 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 138119008199 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 138119008200 putative substrate translocation pore; other site 138119008201 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119008202 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119008203 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119008204 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119008205 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 138119008206 ligand binding site [chemical binding]; other site 138119008207 flexible hinge region; other site 138119008208 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 138119008209 putative switch regulator; other site 138119008210 non-specific DNA interactions [nucleotide binding]; other site 138119008211 DNA binding site [nucleotide binding] 138119008212 sequence specific DNA binding site [nucleotide binding]; other site 138119008213 putative cAMP binding site [chemical binding]; other site 138119008214 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119008215 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119008216 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 138119008217 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 138119008218 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 138119008219 ACS interaction site; other site 138119008220 CODH interaction site; other site 138119008221 cubane metal cluster (B-cluster) [ion binding]; other site 138119008222 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 138119008223 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 138119008224 P-loop; other site 138119008225 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 138119008226 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119008227 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119008228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119008229 Walker A/P-loop; other site 138119008230 ATP binding site [chemical binding]; other site 138119008231 Q-loop/lid; other site 138119008232 ABC transporter signature motif; other site 138119008233 Walker B; other site 138119008234 D-loop; other site 138119008235 H-loop/switch region; other site 138119008236 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 138119008237 dimer interface [polypeptide binding]; other site 138119008238 conserved gate region; other site 138119008239 putative PBP binding loops; other site 138119008240 ABC-ATPase subunit interface; other site 138119008241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138119008242 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 138119008243 substrate binding pocket [chemical binding]; other site 138119008244 membrane-bound complex binding site; other site 138119008245 hinge residues; other site 138119008246 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 138119008247 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 138119008248 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119008249 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 138119008250 TAP-like protein; Region: Abhydrolase_4; pfam08386 138119008251 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 138119008252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119008253 ABC transporter signature motif; other site 138119008254 Walker B; other site 138119008255 D-loop; other site 138119008256 H-loop/switch region; other site 138119008257 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 138119008258 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119008259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119008260 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 138119008261 DNA binding residues [nucleotide binding] 138119008262 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138119008263 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119008264 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119008265 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119008266 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119008267 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 138119008268 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119008269 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119008270 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 138119008271 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 138119008272 Walker A/P-loop; other site 138119008273 ATP binding site [chemical binding]; other site 138119008274 Q-loop/lid; other site 138119008275 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 138119008276 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 138119008277 ABC transporter signature motif; other site 138119008278 Walker B; other site 138119008279 D-loop; other site 138119008280 H-loop/switch region; other site 138119008281 ribonuclease III; Reviewed; Region: rnc; PRK00102 138119008282 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 138119008283 dimerization interface [polypeptide binding]; other site 138119008284 active site 138119008285 metal binding site [ion binding]; metal-binding site 138119008286 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 138119008287 dsRNA binding site [nucleotide binding]; other site 138119008288 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 138119008289 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 138119008290 dimer interface [polypeptide binding]; other site 138119008291 active site 138119008292 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 138119008293 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 138119008294 FMN binding site [chemical binding]; other site 138119008295 substrate binding site [chemical binding]; other site 138119008296 putative catalytic residue [active] 138119008297 acyl carrier protein; Provisional; Region: acpP; PRK00982 138119008298 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 138119008299 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 138119008300 NAD(P) binding site [chemical binding]; other site 138119008301 homotetramer interface [polypeptide binding]; other site 138119008302 homodimer interface [polypeptide binding]; other site 138119008303 active site 138119008304 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 138119008305 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 138119008306 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 138119008307 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 138119008308 FMN binding site [chemical binding]; other site 138119008309 substrate binding site [chemical binding]; other site 138119008310 putative catalytic residue [active] 138119008311 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 138119008312 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 138119008313 dimer interface [polypeptide binding]; other site 138119008314 active site 138119008315 CoA binding pocket [chemical binding]; other site 138119008316 putative phosphate acyltransferase; Provisional; Region: PRK05331 138119008317 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 138119008318 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 138119008319 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 138119008320 active site 2 [active] 138119008321 active site 1 [active] 138119008322 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 138119008323 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 138119008324 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 138119008325 propionate/acetate kinase; Provisional; Region: PRK12379 138119008326 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 138119008327 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 138119008328 nucleophile elbow; other site 138119008329 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 138119008330 Nucleoside recognition; Region: Gate; pfam07670 138119008331 major vault protein; Provisional; Region: PTZ00491 138119008332 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 138119008333 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 138119008334 S-adenosylmethionine binding site [chemical binding]; other site 138119008335 germination protease; Provisional; Region: PRK12362 138119008336 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 138119008337 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 138119008338 ssDNA binding site; other site 138119008339 generic binding surface II; other site 138119008340 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 138119008341 ATP binding site [chemical binding]; other site 138119008342 putative Mg++ binding site [ion binding]; other site 138119008343 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 138119008344 nucleotide binding region [chemical binding]; other site 138119008345 ATP-binding site [chemical binding]; other site 138119008346 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 138119008347 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 138119008348 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 138119008349 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 138119008350 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119008351 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 138119008352 DAK2 domain; Region: Dak2; pfam02734 138119008353 Asp23 family; Region: Asp23; pfam03780 138119008354 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 138119008355 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 138119008356 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 138119008357 dimerization interface [polypeptide binding]; other site 138119008358 domain crossover interface; other site 138119008359 redox-dependent activation switch; other site 138119008360 Thiamine pyrophosphokinase; Region: TPK; cd07995 138119008361 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 138119008362 active site 138119008363 dimerization interface [polypeptide binding]; other site 138119008364 thiamine binding site [chemical binding]; other site 138119008365 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 138119008366 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 138119008367 substrate binding site [chemical binding]; other site 138119008368 hexamer interface [polypeptide binding]; other site 138119008369 metal binding site [ion binding]; metal-binding site 138119008370 GTPase RsgA; Reviewed; Region: PRK00098 138119008371 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 138119008372 RNA binding site [nucleotide binding]; other site 138119008373 homodimer interface [polypeptide binding]; other site 138119008374 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 138119008375 GTPase/Zn-binding domain interface [polypeptide binding]; other site 138119008376 GTP/Mg2+ binding site [chemical binding]; other site 138119008377 G4 box; other site 138119008378 G5 box; other site 138119008379 G1 box; other site 138119008380 Switch I region; other site 138119008381 G2 box; other site 138119008382 G3 box; other site 138119008383 Switch II region; other site 138119008384 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 138119008385 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 138119008386 active site 138119008387 ATP binding site [chemical binding]; other site 138119008388 substrate binding site [chemical binding]; other site 138119008389 activation loop (A-loop); other site 138119008390 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 138119008391 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 138119008392 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 138119008393 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 138119008394 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 138119008395 Protein phosphatase 2C; Region: PP2C; pfam00481 138119008396 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 138119008397 active site 138119008398 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 138119008399 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 138119008400 phosphopeptide binding site; other site 138119008401 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 138119008402 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 138119008403 phosphopeptide binding site; other site 138119008404 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 138119008405 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 138119008406 FeS/SAM binding site; other site 138119008407 16S rRNA methyltransferase B; Provisional; Region: PRK14902 138119008408 NusB family; Region: NusB; pfam01029 138119008409 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 138119008410 S-adenosylmethionine binding site [chemical binding]; other site 138119008411 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 138119008412 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 138119008413 putative active site [active] 138119008414 substrate binding site [chemical binding]; other site 138119008415 putative cosubstrate binding site; other site 138119008416 catalytic site [active] 138119008417 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 138119008418 substrate binding site [chemical binding]; other site 138119008419 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 138119008420 active site 138119008421 catalytic residues [active] 138119008422 metal binding site [ion binding]; metal-binding site 138119008423 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 138119008424 primosomal protein N' Region: priA; TIGR00595 138119008425 ATP binding site [chemical binding]; other site 138119008426 putative Mg++ binding site [ion binding]; other site 138119008427 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 138119008428 ATP-binding site [chemical binding]; other site 138119008429 primosome assembly protein PriA; Validated; Region: PRK05580 138119008430 hypothetical protein; Provisional; Region: PRK02877 138119008431 uracil transporter; Provisional; Region: PRK10720 138119008432 HEPN domain; Region: HEPN; pfam05168 138119008433 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 138119008434 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 138119008435 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 138119008436 Probable Catalytic site; other site 138119008437 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 138119008438 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 138119008439 FeS/SAM binding site; other site 138119008440 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 138119008441 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 138119008442 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119008443 Uncharacterized conserved protein [Function unknown]; Region: COG0398 138119008444 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119008445 Uncharacterized conserved protein [Function unknown]; Region: COG0398 138119008446 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119008447 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119008448 active site residue [active] 138119008449 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 138119008450 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 138119008451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 138119008452 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 138119008453 dimer interface [polypeptide binding]; other site 138119008454 phosphorylation site [posttranslational modification] 138119008455 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 138119008456 ATP binding site [chemical binding]; other site 138119008457 Mg2+ binding site [ion binding]; other site 138119008458 G-X-G motif; other site 138119008459 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119008460 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 138119008461 active site 138119008462 phosphorylation site [posttranslational modification] 138119008463 intermolecular recognition site; other site 138119008464 dimerization interface [polypeptide binding]; other site 138119008465 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 138119008466 DNA binding site [nucleotide binding] 138119008467 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119008468 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 138119008469 Walker A/P-loop; other site 138119008470 ATP binding site [chemical binding]; other site 138119008471 Q-loop/lid; other site 138119008472 ABC transporter signature motif; other site 138119008473 Walker B; other site 138119008474 D-loop; other site 138119008475 H-loop/switch region; other site 138119008476 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 138119008477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 138119008478 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 138119008479 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 138119008480 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119008481 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 138119008482 catalytic loop [active] 138119008483 iron binding site [ion binding]; other site 138119008484 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119008485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119008486 DNA-binding site [nucleotide binding]; DNA binding site 138119008487 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 138119008488 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119008489 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 138119008490 B12 binding site [chemical binding]; other site 138119008491 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 138119008492 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119008493 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119008494 substrate binding pocket [chemical binding]; other site 138119008495 dimer interface [polypeptide binding]; other site 138119008496 inhibitor binding site; inhibition site 138119008497 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 138119008498 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 138119008499 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119008500 B12 binding site [chemical binding]; other site 138119008501 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119008502 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119008503 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119008504 Walker A/P-loop; other site 138119008505 ATP binding site [chemical binding]; other site 138119008506 Q-loop/lid; other site 138119008507 ABC transporter signature motif; other site 138119008508 Walker B; other site 138119008509 D-loop; other site 138119008510 H-loop/switch region; other site 138119008511 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119008512 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119008513 Walker A/P-loop; other site 138119008514 ATP binding site [chemical binding]; other site 138119008515 Q-loop/lid; other site 138119008516 ABC transporter signature motif; other site 138119008517 Walker B; other site 138119008518 D-loop; other site 138119008519 H-loop/switch region; other site 138119008520 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 138119008521 S-adenosylmethionine synthetase; Validated; Region: PRK05250 138119008522 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 138119008523 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 138119008524 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 138119008525 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 138119008526 Flavoprotein; Region: Flavoprotein; pfam02441 138119008527 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 138119008528 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 138119008529 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 138119008530 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 138119008531 catalytic site [active] 138119008532 G-X2-G-X-G-K; other site 138119008533 hypothetical protein; Provisional; Region: PRK04323 138119008534 hypothetical protein; Provisional; Region: PRK11820 138119008535 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 138119008536 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 138119008537 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119008538 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 138119008539 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 138119008540 nucleotide binding site [chemical binding]; other site 138119008541 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119008542 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 138119008543 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 138119008544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 138119008545 Cupin domain; Region: Cupin_2; cl17218 138119008546 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119008547 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119008548 Walker A/P-loop; other site 138119008549 ATP binding site [chemical binding]; other site 138119008550 Q-loop/lid; other site 138119008551 ABC transporter signature motif; other site 138119008552 Walker B; other site 138119008553 D-loop; other site 138119008554 H-loop/switch region; other site 138119008555 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119008556 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 138119008557 dimer interface [polypeptide binding]; other site 138119008558 conserved gate region; other site 138119008559 putative PBP binding loops; other site 138119008560 ABC-ATPase subunit interface; other site 138119008561 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 138119008562 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119008563 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119008564 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 138119008565 ligand binding site [chemical binding]; other site 138119008566 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 138119008567 non-specific DNA interactions [nucleotide binding]; other site 138119008568 DNA binding site [nucleotide binding] 138119008569 sequence specific DNA binding site [nucleotide binding]; other site 138119008570 putative cAMP binding site [chemical binding]; other site 138119008571 Family description; Region: UvrD_C_2; pfam13538 138119008572 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 138119008573 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119008574 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119008575 molybdopterin cofactor binding site; other site 138119008576 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119008577 molybdopterin cofactor binding site; other site 138119008578 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119008579 4Fe-4S binding domain; Region: Fer4; cl02805 138119008580 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 138119008581 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 138119008582 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 138119008583 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 138119008584 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 138119008585 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119008586 catalytic residue [active] 138119008587 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119008588 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 138119008589 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 138119008590 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119008591 putative active site [active] 138119008592 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119008593 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 138119008594 non-specific DNA binding site [nucleotide binding]; other site 138119008595 salt bridge; other site 138119008596 sequence-specific DNA binding site [nucleotide binding]; other site 138119008597 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 138119008598 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 138119008599 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119008600 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 138119008601 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119008602 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 138119008603 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 138119008604 Domain of unknown function (DUF814); Region: DUF814; pfam05670 138119008605 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119008606 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 138119008607 non-specific DNA binding site [nucleotide binding]; other site 138119008608 salt bridge; other site 138119008609 sequence-specific DNA binding site [nucleotide binding]; other site 138119008610 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 138119008611 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 138119008612 Suppression of tumorigenicity 7; Region: ST7; cd11557 138119008613 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 138119008614 RibD C-terminal domain; Region: RibD_C; cl17279 138119008615 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 138119008616 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 138119008617 putative active site [active] 138119008618 metal binding site [ion binding]; metal-binding site 138119008619 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 138119008620 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 138119008621 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 138119008622 DNA binding residues [nucleotide binding] 138119008623 putative dimer interface [polypeptide binding]; other site 138119008624 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 138119008625 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 138119008626 Heme exporter protein D (CcmD); Region: CcmD; cl11475 138119008627 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119008628 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 138119008629 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 138119008630 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 138119008631 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 138119008632 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 138119008633 Uncharacterized conserved protein [Function unknown]; Region: COG2433 138119008634 Fic/DOC family; Region: Fic; cl00960 138119008635 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 138119008636 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 138119008637 Family of unknown function (DUF694); Region: DUF694; pfam05107 138119008638 Protein of unknown function DUF86; Region: DUF86; cl01031 138119008639 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 138119008640 active site 138119008641 NTP binding site [chemical binding]; other site 138119008642 metal binding triad [ion binding]; metal-binding site 138119008643 antibiotic binding site [chemical binding]; other site 138119008644 CRISPR associated protein Cas6; Region: Cas_Cas6; pfam01881 138119008645 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119008646 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119008647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119008648 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 138119008649 ATP binding site [chemical binding]; other site 138119008650 Mg2+ binding site [ion binding]; other site 138119008651 G-X-G motif; other site 138119008652 Protein of unknown function; Region: DUF3658; pfam12395 138119008653 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 138119008654 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119008655 dimer interface [polypeptide binding]; other site 138119008656 phosphorylation site [posttranslational modification] 138119008657 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 138119008658 ATP binding site [chemical binding]; other site 138119008659 Mg2+ binding site [ion binding]; other site 138119008660 G-X-G motif; other site 138119008661 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 138119008662 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119008663 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119008664 Walker A/P-loop; other site 138119008665 ATP binding site [chemical binding]; other site 138119008666 Q-loop/lid; other site 138119008667 ABC transporter signature motif; other site 138119008668 Walker B; other site 138119008669 D-loop; other site 138119008670 H-loop/switch region; other site 138119008671 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119008672 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 138119008673 active site 138119008674 phosphorylation site [posttranslational modification] 138119008675 intermolecular recognition site; other site 138119008676 dimerization interface [polypeptide binding]; other site 138119008677 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 138119008678 DNA binding site [nucleotide binding] 138119008679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119008680 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119008681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119008682 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 138119008683 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 138119008684 active site 138119008685 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 138119008686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119008687 shikimate kinase II; Reviewed; Region: aroL; cl17327 138119008688 AAA domain; Region: AAA_18; pfam13238 138119008689 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 138119008690 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119008691 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119008692 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119008693 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119008694 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119008695 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 138119008696 Walker A/P-loop; other site 138119008697 ATP binding site [chemical binding]; other site 138119008698 Q-loop/lid; other site 138119008699 ABC transporter signature motif; other site 138119008700 Walker B; other site 138119008701 D-loop; other site 138119008702 H-loop/switch region; other site 138119008703 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119008704 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119008705 active site 138119008706 FMN binding site [chemical binding]; other site 138119008707 substrate binding site [chemical binding]; other site 138119008708 putative catalytic residue [active] 138119008709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119008710 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 138119008711 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 138119008712 DNA binding residues [nucleotide binding] 138119008713 dimer interface [polypeptide binding]; other site 138119008714 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119008715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119008716 Helix-turn-helix domain; Region: HTH_18; pfam12833 138119008717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119008718 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 138119008719 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119008720 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 138119008721 putative active site [active] 138119008722 putative NTP binding site [chemical binding]; other site 138119008723 putative nucleic acid binding site [nucleotide binding]; other site 138119008724 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 138119008725 Family of unknown function (DUF694); Region: DUF694; pfam05107 138119008726 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 138119008727 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119008728 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119008729 Uncharacterized conserved protein [Function unknown]; Region: COG2361 138119008730 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 138119008731 active site 138119008732 NTP binding site [chemical binding]; other site 138119008733 metal binding triad [ion binding]; metal-binding site 138119008734 antibiotic binding site [chemical binding]; other site 138119008735 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119008736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119008737 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 138119008738 Part of AAA domain; Region: AAA_19; pfam13245 138119008739 Family description; Region: UvrD_C_2; pfam13538 138119008740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119008741 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 138119008742 non-specific DNA binding site [nucleotide binding]; other site 138119008743 salt bridge; other site 138119008744 sequence-specific DNA binding site [nucleotide binding]; other site 138119008745 FMN-binding domain; Region: FMN_bind; cl01081 138119008746 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119008747 L-aspartate oxidase; Provisional; Region: PRK06175 138119008748 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 138119008749 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119008750 DNA binding residues [nucleotide binding] 138119008751 salicylate synthase; Region: salicyl_syn; TIGR03494 138119008752 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 138119008753 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119008754 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 138119008755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119008756 NAD(P) binding site [chemical binding]; other site 138119008757 Condensation domain; Region: Condensation; pfam00668 138119008758 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 138119008759 Nonribosomal peptide synthase; Region: NRPS; pfam08415 138119008760 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 138119008761 acyl-activating enzyme (AAE) consensus motif; other site 138119008762 AMP binding site [chemical binding]; other site 138119008763 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119008764 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 138119008765 S-adenosylmethionine binding site [chemical binding]; other site 138119008766 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119008767 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 138119008768 Thioesterase domain; Region: Thioesterase; pfam00975 138119008769 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 138119008770 Condensation domain; Region: Condensation; pfam00668 138119008771 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 138119008772 Nonribosomal peptide synthase; Region: NRPS; pfam08415 138119008773 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 138119008774 acyl-activating enzyme (AAE) consensus motif; other site 138119008775 AMP binding site [chemical binding]; other site 138119008776 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 138119008777 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 138119008778 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 138119008779 acyl-activating enzyme (AAE) consensus motif; other site 138119008780 active site 138119008781 AMP binding site [chemical binding]; other site 138119008782 substrate binding site [chemical binding]; other site 138119008783 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 138119008784 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 138119008785 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 138119008786 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119008787 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119008788 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119008789 Walker A/P-loop; other site 138119008790 ATP binding site [chemical binding]; other site 138119008791 Q-loop/lid; other site 138119008792 ABC transporter signature motif; other site 138119008793 Walker B; other site 138119008794 D-loop; other site 138119008795 H-loop/switch region; other site 138119008796 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119008797 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119008798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119008799 Walker A/P-loop; other site 138119008800 ATP binding site [chemical binding]; other site 138119008801 Q-loop/lid; other site 138119008802 ABC transporter signature motif; other site 138119008803 Walker B; other site 138119008804 D-loop; other site 138119008805 H-loop/switch region; other site 138119008806 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119008807 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 138119008808 substrate binding site [chemical binding]; other site 138119008809 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 138119008810 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119008811 Walker A/P-loop; other site 138119008812 ATP binding site [chemical binding]; other site 138119008813 Q-loop/lid; other site 138119008814 ABC transporter signature motif; other site 138119008815 Walker B; other site 138119008816 D-loop; other site 138119008817 H-loop/switch region; other site 138119008818 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119008819 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 138119008820 Walker A/P-loop; other site 138119008821 ATP binding site [chemical binding]; other site 138119008822 Q-loop/lid; other site 138119008823 ABC transporter signature motif; other site 138119008824 Walker B; other site 138119008825 D-loop; other site 138119008826 H-loop/switch region; other site 138119008827 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 138119008828 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 138119008829 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 138119008830 dimer interface [polypeptide binding]; other site 138119008831 conserved gate region; other site 138119008832 putative PBP binding loops; other site 138119008833 ABC-ATPase subunit interface; other site 138119008834 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119008835 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 138119008836 dimer interface [polypeptide binding]; other site 138119008837 conserved gate region; other site 138119008838 putative PBP binding loops; other site 138119008839 ABC-ATPase subunit interface; other site 138119008840 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119008841 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119008842 Transposase, Mutator family; Region: Transposase_mut; pfam00872 138119008843 MULE transposase domain; Region: MULE; pfam10551 138119008844 trigger factor; Region: tig; TIGR00115 138119008845 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 138119008846 FMN-binding domain; Region: FMN_bind; pfam04205 138119008847 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119008848 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119008849 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 138119008850 reductive dehalogenase; Region: RDH; TIGR02486 138119008851 Transposase, Mutator family; Region: Transposase_mut; pfam00872 138119008852 MULE transposase domain; Region: MULE; pfam10551 138119008853 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119008854 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119008855 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119008856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 138119008857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119008858 Coenzyme A binding pocket [chemical binding]; other site 138119008859 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 138119008860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119008861 Coenzyme A binding pocket [chemical binding]; other site 138119008862 VanZ like family; Region: VanZ; pfam04892 138119008863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119008864 Zn2+ binding site [ion binding]; other site 138119008865 Mg2+ binding site [ion binding]; other site 138119008866 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119008867 Coenzyme A binding pocket [chemical binding]; other site 138119008868 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 138119008869 B12 binding site [chemical binding]; other site 138119008870 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 138119008871 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 138119008872 FeS/SAM binding site; other site 138119008873 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119008874 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119008875 TIR domain; Region: TIR_2; pfam13676 138119008876 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 138119008877 TPR motif; other site 138119008878 binding surface 138119008879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119008880 active site 138119008881 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 138119008882 active site 138119008883 dimer interface [polypeptide binding]; other site 138119008884 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 138119008885 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 138119008886 heterodimer interface [polypeptide binding]; other site 138119008887 active site 138119008888 FMN binding site [chemical binding]; other site 138119008889 homodimer interface [polypeptide binding]; other site 138119008890 substrate binding site [chemical binding]; other site 138119008891 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 138119008892 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 138119008893 FAD binding pocket [chemical binding]; other site 138119008894 FAD binding motif [chemical binding]; other site 138119008895 phosphate binding motif [ion binding]; other site 138119008896 beta-alpha-beta structure motif; other site 138119008897 NAD binding pocket [chemical binding]; other site 138119008898 Iron coordination center [ion binding]; other site 138119008899 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 138119008900 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119008901 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 138119008902 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 138119008903 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 138119008904 ATP-grasp domain; Region: ATP-grasp_4; cl17255 138119008905 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 138119008906 IMP binding site; other site 138119008907 dimer interface [polypeptide binding]; other site 138119008908 interdomain contacts; other site 138119008909 partial ornithine binding site; other site 138119008910 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 138119008911 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 138119008912 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 138119008913 catalytic site [active] 138119008914 subunit interface [polypeptide binding]; other site 138119008915 dihydroorotase; Validated; Region: pyrC; PRK09357 138119008916 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 138119008917 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 138119008918 active site 138119008919 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 138119008920 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 138119008921 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 138119008922 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 138119008923 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119008924 active site 138119008925 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 138119008926 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 138119008927 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 138119008928 RNA binding surface [nucleotide binding]; other site 138119008929 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 138119008930 active site 138119008931 lipoprotein signal peptidase; Provisional; Region: PRK14793 138119008932 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 138119008933 Pirin-related protein [General function prediction only]; Region: COG1741 138119008934 Pirin; Region: Pirin; pfam02678 138119008935 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 138119008936 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 138119008937 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 138119008938 Metal-binding active site; metal-binding site 138119008939 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 138119008940 UbiA prenyltransferase family; Region: UbiA; pfam01040 138119008941 flavoprotein, HI0933 family; Region: TIGR00275 138119008942 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119008943 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119008944 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 138119008945 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 138119008946 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119008947 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119008948 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 138119008949 tetramer interface [polypeptide binding]; other site 138119008950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119008951 catalytic residue [active] 138119008952 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 138119008953 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 138119008954 tetramer interface [polypeptide binding]; other site 138119008955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119008956 catalytic residue [active] 138119008957 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 138119008958 lipoyl attachment site [posttranslational modification]; other site 138119008959 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 138119008960 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 138119008961 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 138119008962 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119008963 dimer interface [polypeptide binding]; other site 138119008964 putative CheW interface [polypeptide binding]; other site 138119008965 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 138119008966 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 138119008967 HIGH motif; other site 138119008968 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 138119008969 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 138119008970 active site 138119008971 KMSKS motif; other site 138119008972 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 138119008973 tRNA binding surface [nucleotide binding]; other site 138119008974 anticodon binding site; other site 138119008975 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 138119008976 DivIVA protein; Region: DivIVA; pfam05103 138119008977 DivIVA domain; Region: DivI1A_domain; TIGR03544 138119008978 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 138119008979 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 138119008980 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 138119008981 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 138119008982 RNA binding surface [nucleotide binding]; other site 138119008983 YGGT family; Region: YGGT; pfam02325 138119008984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 138119008985 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 138119008986 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 138119008987 catalytic residue [active] 138119008988 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 138119008989 HlyD family secretion protein; Region: HlyD_2; pfam12700 138119008990 putative membrane fusion protein; Region: TIGR02828 138119008991 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119008992 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119008993 putative active site [active] 138119008994 heme pocket [chemical binding]; other site 138119008995 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 138119008996 dimer interface [polypeptide binding]; other site 138119008997 phosphorylation site [posttranslational modification] 138119008998 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 138119008999 ATP binding site [chemical binding]; other site 138119009000 Mg2+ binding site [ion binding]; other site 138119009001 G-X-G motif; other site 138119009002 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119009003 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 138119009004 active site 138119009005 phosphorylation site [posttranslational modification] 138119009006 intermolecular recognition site; other site 138119009007 dimerization interface [polypeptide binding]; other site 138119009008 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 138119009009 DNA binding site [nucleotide binding] 138119009010 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 138119009011 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 138119009012 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 138119009013 sporulation sigma factor SigG; Reviewed; Region: PRK08215 138119009014 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119009015 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138119009016 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 138119009017 DNA binding residues [nucleotide binding] 138119009018 sporulation sigma factor SigE; Reviewed; Region: PRK08301 138119009019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119009020 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 138119009021 DNA binding residues [nucleotide binding] 138119009022 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 138119009023 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 138119009024 FMN-binding domain; Region: FMN_bind; cl01081 138119009025 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119009026 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119009027 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119009028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119009029 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119009030 putative active site [active] 138119009031 HipA-like C-terminal domain; Region: HipA_C; pfam07804 138119009032 cell division protein FtsZ; Validated; Region: PRK09330 138119009033 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 138119009034 nucleotide binding site [chemical binding]; other site 138119009035 SulA interaction site; other site 138119009036 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 138119009037 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 138119009038 Cell division protein FtsQ; Region: FtsQ; pfam03799 138119009039 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 138119009040 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 138119009041 hinge; other site 138119009042 active site 138119009043 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 138119009044 FAD binding domain; Region: FAD_binding_4; pfam01565 138119009045 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 138119009046 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 138119009047 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 138119009048 active site 138119009049 homodimer interface [polypeptide binding]; other site 138119009050 cell division protein FtsW; Region: ftsW; TIGR02614 138119009051 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 138119009052 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 138119009053 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119009054 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119009055 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 138119009056 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 138119009057 Mg++ binding site [ion binding]; other site 138119009058 putative catalytic motif [active] 138119009059 putative substrate binding site [chemical binding]; other site 138119009060 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 138119009061 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138119009062 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119009063 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119009064 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 138119009065 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138119009066 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119009067 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119009068 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 138119009069 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 138119009070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 138119009071 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 138119009072 Septum formation initiator; Region: DivIC; cl17659 138119009073 MraW methylase family; Region: Methyltransf_5; pfam01795 138119009074 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 138119009075 cell division protein MraZ; Reviewed; Region: PRK00326 138119009076 MraZ protein; Region: MraZ; pfam02381 138119009077 MraZ protein; Region: MraZ; pfam02381 138119009078 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 138119009079 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 138119009080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119009081 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138119009082 HAMP domain; Region: HAMP; pfam00672 138119009083 dimerization interface [polypeptide binding]; other site 138119009084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119009085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119009086 dimer interface [polypeptide binding]; other site 138119009087 putative CheW interface [polypeptide binding]; other site 138119009088 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 138119009089 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 138119009090 ferric uptake regulator; Provisional; Region: fur; PRK09462 138119009091 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 138119009092 metal binding site 2 [ion binding]; metal-binding site 138119009093 putative DNA binding helix; other site 138119009094 metal binding site 1 [ion binding]; metal-binding site 138119009095 dimer interface [polypeptide binding]; other site 138119009096 structural Zn2+ binding site [ion binding]; other site 138119009097 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 138119009098 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 138119009099 metal ion-dependent adhesion site (MIDAS); other site 138119009100 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 138119009101 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119009102 Walker A motif; other site 138119009103 ATP binding site [chemical binding]; other site 138119009104 Walker B motif; other site 138119009105 arginine finger; other site 138119009106 Protein of unknown function (DUF964); Region: DUF964; pfam06133 138119009107 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009108 Zn2+ binding site [ion binding]; other site 138119009109 Mg2+ binding site [ion binding]; other site 138119009110 histidinol-phosphatase; Provisional; Region: PRK07328 138119009111 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 138119009112 active site 138119009113 dimer interface [polypeptide binding]; other site 138119009114 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 138119009115 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 138119009116 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 138119009117 BRO family, N-terminal domain; Region: Bro-N; pfam02498 138119009118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119009119 Helix-turn-helix domain; Region: HTH_28; pfam13518 138119009120 Helix-turn-helix domain; Region: HTH_28; pfam13518 138119009121 Helix-turn-helix domain; Region: HTH_28; pfam13518 138119009122 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119009123 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119009124 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119009125 Coenzyme A binding pocket [chemical binding]; other site 138119009126 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 138119009127 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 138119009128 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 138119009129 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 138119009130 Response regulator receiver domain; Region: Response_reg; pfam00072 138119009131 active site 138119009132 phosphorylation site [posttranslational modification] 138119009133 intermolecular recognition site; other site 138119009134 dimerization interface [polypeptide binding]; other site 138119009135 AAA domain; Region: AAA_14; pfam13173 138119009136 AAA domain; Region: AAA_22; pfam13401 138119009137 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119009138 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 138119009139 Walker A motif; other site 138119009140 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 138119009141 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 138119009142 dimer interface [polypeptide binding]; other site 138119009143 putative functional site; other site 138119009144 putative MPT binding site; other site 138119009145 Protein of unknown function (DUF342); Region: DUF342; pfam03961 138119009146 Transcriptional regulator [Transcription]; Region: LytR; COG1316 138119009147 Negative regulator of genetic competence (MecA); Region: MecA; pfam05389 138119009148 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 138119009149 Uncharacterized conserved protein [Function unknown]; Region: COG2006 138119009150 4Fe-4S binding domain; Region: Fer4; pfam00037 138119009151 4Fe-4S binding domain; Region: Fer4_6; pfam12837 138119009152 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 138119009153 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119009154 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009155 Zn2+ binding site [ion binding]; other site 138119009156 Mg2+ binding site [ion binding]; other site 138119009157 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 138119009158 CPxP motif; other site 138119009159 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 138119009160 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 138119009161 4Fe-4S binding domain; Region: Fer4; pfam00037 138119009162 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 138119009163 MPN+ (JAMM) motif; other site 138119009164 Zinc-binding site [ion binding]; other site 138119009165 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 138119009166 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 138119009167 ATP binding site [chemical binding]; other site 138119009168 substrate interface [chemical binding]; other site 138119009169 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 138119009170 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 138119009171 CysD dimerization site [polypeptide binding]; other site 138119009172 G1 box; other site 138119009173 putative GEF interaction site [polypeptide binding]; other site 138119009174 GTP/Mg2+ binding site [chemical binding]; other site 138119009175 Switch I region; other site 138119009176 G2 box; other site 138119009177 G3 box; other site 138119009178 Switch II region; other site 138119009179 G4 box; other site 138119009180 G5 box; other site 138119009181 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 138119009182 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 138119009183 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 138119009184 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 138119009185 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 138119009186 Active Sites [active] 138119009187 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 138119009188 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 138119009189 Active Sites [active] 138119009190 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 138119009191 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 138119009192 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119009193 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 138119009194 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 138119009195 Walker A/P-loop; other site 138119009196 ATP binding site [chemical binding]; other site 138119009197 Q-loop/lid; other site 138119009198 ABC transporter signature motif; other site 138119009199 Walker B; other site 138119009200 D-loop; other site 138119009201 H-loop/switch region; other site 138119009202 TOBE-like domain; Region: TOBE_3; pfam12857 138119009203 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 138119009204 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 138119009205 dimer interface [polypeptide binding]; other site 138119009206 conserved gate region; other site 138119009207 putative PBP binding loops; other site 138119009208 ABC-ATPase subunit interface; other site 138119009209 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 138119009210 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 138119009211 dimer interface [polypeptide binding]; other site 138119009212 conserved gate region; other site 138119009213 putative PBP binding loops; other site 138119009214 ABC-ATPase subunit interface; other site 138119009215 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 138119009216 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 138119009217 substrate binding pocket [chemical binding]; other site 138119009218 membrane-bound complex binding site; other site 138119009219 hinge residues; other site 138119009220 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 138119009221 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 138119009222 N-acetyl-D-glucosamine binding site [chemical binding]; other site 138119009223 catalytic residue [active] 138119009224 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 138119009225 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 138119009226 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 138119009227 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 138119009228 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 138119009229 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 138119009230 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 138119009231 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 138119009232 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 138119009233 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 138119009234 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 138119009235 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 138119009236 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 138119009237 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 138119009238 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 138119009239 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119009240 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138119009241 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 138119009242 DNA binding residues [nucleotide binding] 138119009243 glutaminyl-tRNA synthetase; Provisional; Region: PTZ00437 138119009244 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 138119009245 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 138119009246 CheC-like family; Region: CheC; pfam04509 138119009247 CheC-like family; Region: CheC; pfam04509 138119009248 Flagellar protein YcgR; Region: YcgR_2; pfam12945 138119009249 PilZ domain; Region: PilZ; pfam07238 138119009250 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 138119009251 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119009252 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 138119009253 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 138119009254 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119009255 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 138119009256 FHIPEP family; Region: FHIPEP; pfam00771 138119009257 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 138119009258 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 138119009259 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 138119009260 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 138119009261 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 138119009262 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 138119009263 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 138119009264 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 138119009265 active site 138119009266 phosphorylation site [posttranslational modification] 138119009267 intermolecular recognition site; other site 138119009268 dimerization interface [polypeptide binding]; other site 138119009269 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 138119009270 CheC-like family; Region: CheC; pfam04509 138119009271 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 138119009272 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 138119009273 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 138119009274 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 138119009275 Flagellar protein (FlbD); Region: FlbD; pfam06289 138119009276 Flagellar FliJ protein; Region: FliJ; pfam02050 138119009277 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 138119009278 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 138119009279 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 138119009280 Walker A motif/ATP binding site; other site 138119009281 Walker B motif; other site 138119009282 Flagellar assembly protein FliH; Region: FliH; pfam02108 138119009283 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 138119009284 MgtE intracellular N domain; Region: MgtE_N; cl15244 138119009285 FliG C-terminal domain; Region: FliG_C; pfam01706 138119009286 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 138119009287 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 138119009288 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 138119009289 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 138119009290 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 138119009291 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 138119009292 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 138119009293 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 138119009294 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 138119009295 active site 138119009296 phosphorylation site [posttranslational modification] 138119009297 intermolecular recognition site; other site 138119009298 dimerization interface [polypeptide binding]; other site 138119009299 CheB methylesterase; Region: CheB_methylest; pfam01339 138119009300 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 138119009301 putative CheA interaction surface; other site 138119009302 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 138119009303 putative binding surface; other site 138119009304 active site 138119009305 P2 response regulator binding domain; Region: P2; pfam07194 138119009306 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 138119009307 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 138119009308 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 138119009309 ATP binding site [chemical binding]; other site 138119009310 Mg2+ binding site [ion binding]; other site 138119009311 G-X-G motif; other site 138119009312 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 138119009313 phosphodiesterase; Provisional; Region: PRK12704 138119009314 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119009315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009316 Zn2+ binding site [ion binding]; other site 138119009317 Mg2+ binding site [ion binding]; other site 138119009318 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119009319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119009320 putative CheW interface [polypeptide binding]; other site 138119009321 FlaG protein; Region: FlaG; pfam03646 138119009322 Flagellar protein FliS; Region: FliS; cl00654 138119009323 flagellar capping protein; Validated; Region: fliD; PRK07737 138119009324 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 138119009325 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 138119009326 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 138119009327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119009328 Transposase; Region: HTH_Tnp_1; pfam01527 138119009329 HTH-like domain; Region: HTH_21; pfam13276 138119009330 Integrase core domain; Region: rve; pfam00665 138119009331 Integrase core domain; Region: rve_3; pfam13683 138119009332 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 138119009333 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 138119009334 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119009335 UDP-galactopyranose mutase; Region: GLF; pfam03275 138119009336 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 138119009337 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 138119009338 FeS/SAM binding site; other site 138119009339 pyruvate formate lyase II activase; Provisional; Region: PRK10076 138119009340 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 138119009341 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 138119009342 putative NAD(P) binding site [chemical binding]; other site 138119009343 catalytic Zn binding site [ion binding]; other site 138119009344 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 138119009345 substrate binding site; other site 138119009346 dimer interface; other site 138119009347 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 138119009348 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 138119009349 substrate binding site [chemical binding]; other site 138119009350 hexamer interface [polypeptide binding]; other site 138119009351 metal binding site [ion binding]; metal-binding site 138119009352 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 138119009353 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 138119009354 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 138119009355 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 138119009356 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 138119009357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119009358 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 138119009359 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 138119009360 putative metal binding site; other site 138119009361 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 138119009362 flagellin; Reviewed; Region: PRK08869 138119009363 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 138119009364 FlaG protein; Region: FlaG; pfam03646 138119009365 Global regulator protein family; Region: CsrA; pfam02599 138119009366 flagellar assembly protein FliW; Provisional; Region: PRK13285 138119009367 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 138119009368 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 138119009369 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 138119009370 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 138119009371 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 138119009372 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 138119009373 FlgN protein; Region: FlgN; pfam05130 138119009374 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 138119009375 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119009376 putative active site [active] 138119009377 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 138119009378 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 138119009379 flagellar motor protein MotD; Reviewed; Region: PRK09038 138119009380 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 138119009381 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 138119009382 ligand binding site [chemical binding]; other site 138119009383 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 138119009384 Peptidase family M28; Region: Peptidase_M28; pfam04389 138119009385 metal binding site [ion binding]; metal-binding site 138119009386 Protein of unknown function (DUF327); Region: DUF327; pfam03885 138119009387 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 138119009388 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 138119009389 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 138119009390 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 138119009391 Coenzyme A transferase; Region: CoA_trans; cl17247 138119009392 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 138119009393 citrate lyase subunit gamma; Provisional; Region: PRK13253 138119009394 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 138119009395 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 138119009396 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 138119009397 NAD binding site [chemical binding]; other site 138119009398 catalytic Zn binding site [ion binding]; other site 138119009399 structural Zn binding site [ion binding]; other site 138119009400 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 138119009401 Uncharacterized conserved protein [Function unknown]; Region: COG0327 138119009402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 138119009403 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 138119009404 Uncharacterized conserved protein [Function unknown]; Region: COG0327 138119009405 Family of unknown function (DUF633); Region: DUF633; pfam04816 138119009406 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 138119009407 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 138119009408 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 138119009409 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119009410 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 138119009411 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 138119009412 DNA binding residues [nucleotide binding] 138119009413 DNA primase; Validated; Region: dnaG; PRK05667 138119009414 CHC2 zinc finger; Region: zf-CHC2; pfam01807 138119009415 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 138119009416 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 138119009417 active site 138119009418 metal binding site [ion binding]; metal-binding site 138119009419 interdomain interaction site; other site 138119009420 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 138119009421 Sporulation and spore germination; Region: Germane; pfam10646 138119009422 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 138119009423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009424 Zn2+ binding site [ion binding]; other site 138119009425 Mg2+ binding site [ion binding]; other site 138119009426 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 138119009427 FMN-binding domain; Region: FMN_bind; pfam04205 138119009428 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119009429 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119009430 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119009431 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 138119009432 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 138119009433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119009434 homodimer interface [polypeptide binding]; other site 138119009435 catalytic residue [active] 138119009436 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 138119009437 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 138119009438 metal binding site [ion binding]; metal-binding site 138119009439 dimer interface [polypeptide binding]; other site 138119009440 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119009441 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119009442 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119009443 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 138119009444 putative [4Fe-4S] binding site [ion binding]; other site 138119009445 putative molybdopterin cofactor binding site [chemical binding]; other site 138119009446 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119009447 putative molybdopterin cofactor binding site; other site 138119009448 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 138119009449 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119009450 ligand binding site [chemical binding]; other site 138119009451 flexible hinge region; other site 138119009452 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 138119009453 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119009454 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119009455 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 138119009456 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119009457 putative [4Fe-4S] binding site [ion binding]; other site 138119009458 putative molybdopterin cofactor binding site [chemical binding]; other site 138119009459 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119009460 putative molybdopterin cofactor binding site; other site 138119009461 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 138119009462 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119009463 ligand binding site [chemical binding]; other site 138119009464 flexible hinge region; other site 138119009465 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 138119009466 Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators; Region: HTH_HspR-like_MBC; cd04767 138119009467 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119009468 DNA binding residues [nucleotide binding] 138119009469 putative dimer interface [polypeptide binding]; other site 138119009470 putative metal binding residues [ion binding]; other site 138119009471 Cytochrome c552; Region: Cytochrom_C552; pfam02335 138119009472 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 138119009473 YibE/F-like protein; Region: YibE_F; pfam07907 138119009474 putative oxidoreductase; Provisional; Region: PRK11445 138119009475 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119009476 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 138119009477 salt bridge; other site 138119009478 non-specific DNA binding site [nucleotide binding]; other site 138119009479 sequence-specific DNA binding site [nucleotide binding]; other site 138119009480 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 138119009481 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119009482 hypothetical protein; Provisional; Region: PRK08296 138119009483 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 138119009484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119009485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119009486 radical SAM peptide maturase, CXXX-repeat target family; Region: rSAM_Cxxx_rpt; TIGR04115 138119009487 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 138119009488 FeS/SAM binding site; other site 138119009489 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 138119009490 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 138119009491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 138119009492 pyruvate phosphate dikinase; Provisional; Region: PRK09279 138119009493 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119009494 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 138119009495 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 138119009496 PEP synthetase regulatory protein; Provisional; Region: PRK05339 138119009497 HTH domain; Region: HTH_11; pfam08279 138119009498 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 138119009499 FOG: CBS domain [General function prediction only]; Region: COG0517 138119009500 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 138119009501 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 138119009502 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 138119009503 dimer interface [polypeptide binding]; other site 138119009504 motif 1; other site 138119009505 active site 138119009506 motif 2; other site 138119009507 motif 3; other site 138119009508 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 138119009509 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119009510 Cysteine-rich domain; Region: CCG; pfam02754 138119009511 NTPase; Region: NTPase_1; pfam03266 138119009512 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 138119009513 S-adenosylmethionine binding site [chemical binding]; other site 138119009514 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 138119009515 Domain of unknown function (DUF364); Region: DUF364; pfam04016 138119009516 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 138119009517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119009518 Walker A/P-loop; other site 138119009519 ATP binding site [chemical binding]; other site 138119009520 Q-loop/lid; other site 138119009521 ABC transporter signature motif; other site 138119009522 Walker B; other site 138119009523 D-loop; other site 138119009524 H-loop/switch region; other site 138119009525 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 138119009526 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119009527 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 138119009528 ABC-ATPase subunit interface; other site 138119009529 dimer interface [polypeptide binding]; other site 138119009530 putative PBP binding regions; other site 138119009531 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119009532 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119009533 Walker A/P-loop; other site 138119009534 ATP binding site [chemical binding]; other site 138119009535 Q-loop/lid; other site 138119009536 ABC transporter signature motif; other site 138119009537 Walker B; other site 138119009538 D-loop; other site 138119009539 H-loop/switch region; other site 138119009540 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119009541 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 138119009542 intersubunit interface [polypeptide binding]; other site 138119009543 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 138119009544 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 138119009545 G1 box; other site 138119009546 putative GEF interaction site [polypeptide binding]; other site 138119009547 GTP/Mg2+ binding site [chemical binding]; other site 138119009548 Switch I region; other site 138119009549 G2 box; other site 138119009550 G3 box; other site 138119009551 Switch II region; other site 138119009552 G4 box; other site 138119009553 G5 box; other site 138119009554 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 138119009555 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 138119009556 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 138119009557 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 138119009558 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 138119009559 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 138119009560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119009561 catalytic residue [active] 138119009562 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 138119009563 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 138119009564 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 138119009565 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 138119009566 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119009567 4Fe-4S binding domain; Region: Fer4; pfam00037 138119009568 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 138119009569 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119009570 molybdopterin cofactor binding site; other site 138119009571 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119009572 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 138119009573 molybdopterin cofactor binding site; other site 138119009574 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 138119009575 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 138119009576 Recombination protein O N terminal; Region: RecO_N; pfam11967 138119009577 Recombination protein O C terminal; Region: RecO_C; pfam02565 138119009578 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 138119009579 intersubunit interface [polypeptide binding]; other site 138119009580 active site 138119009581 catalytic residue [active] 138119009582 GTPase Era; Reviewed; Region: era; PRK00089 138119009583 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 138119009584 G1 box; other site 138119009585 GTP/Mg2+ binding site [chemical binding]; other site 138119009586 Switch I region; other site 138119009587 G2 box; other site 138119009588 Switch II region; other site 138119009589 G3 box; other site 138119009590 G4 box; other site 138119009591 G5 box; other site 138119009592 KH domain; Region: KH_2; pfam07650 138119009593 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 138119009594 active site 138119009595 catalytic motif [active] 138119009596 Zn binding site [ion binding]; other site 138119009597 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 138119009598 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 138119009599 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 138119009600 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 138119009601 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009602 Zn2+ binding site [ion binding]; other site 138119009603 Mg2+ binding site [ion binding]; other site 138119009604 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 138119009605 PhoH-like protein; Region: PhoH; pfam02562 138119009606 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 138119009607 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 138119009608 YabP family; Region: YabP; cl06766 138119009609 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 138119009610 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 138119009611 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 138119009612 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 138119009613 hydrogenase 4 subunit F; Validated; Region: PRK06458 138119009614 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119009615 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 138119009616 NADH dehydrogenase; Region: NADHdh; cl00469 138119009617 hydrogenase 4 subunit B; Validated; Region: PRK06521 138119009618 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119009619 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 138119009620 active site 138119009621 catalytic triad [active] 138119009622 oxyanion hole [active] 138119009623 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 138119009624 putative deacylase active site [active] 138119009625 Yqey-like protein; Region: YqeY; pfam09424 138119009626 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 138119009627 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 138119009628 nucleotide binding site/active site [active] 138119009629 HIT family signature motif; other site 138119009630 catalytic residue [active] 138119009631 PEGA domain; Region: PEGA; pfam08308 138119009632 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 138119009633 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 138119009634 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 138119009635 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 138119009636 FeS/SAM binding site; other site 138119009637 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 138119009638 RNA methyltransferase, RsmE family; Region: TIGR00046 138119009639 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 138119009640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 138119009641 chaperone protein DnaJ; Provisional; Region: PRK10767 138119009642 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 138119009643 HSP70 interaction site [polypeptide binding]; other site 138119009644 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 138119009645 substrate binding site [polypeptide binding]; other site 138119009646 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 138119009647 Zn binding sites [ion binding]; other site 138119009648 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 138119009649 dimer interface [polypeptide binding]; other site 138119009650 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 138119009651 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 138119009652 nucleotide binding site [chemical binding]; other site 138119009653 NEF interaction site [polypeptide binding]; other site 138119009654 SBD interface [polypeptide binding]; other site 138119009655 GrpE; Region: GrpE; pfam01025 138119009656 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 138119009657 dimer interface [polypeptide binding]; other site 138119009658 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 138119009659 HrcA protein C terminal domain; Region: HrcA; pfam01628 138119009660 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 138119009661 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 138119009662 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 138119009663 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 138119009664 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119009665 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119009666 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119009667 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 138119009668 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 138119009669 active site 138119009670 phosphorylation site [posttranslational modification] 138119009671 intermolecular recognition site; other site 138119009672 dimerization interface [polypeptide binding]; other site 138119009673 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 138119009674 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 138119009675 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 138119009676 FeS/SAM binding site; other site 138119009677 HemN C-terminal domain; Region: HemN_C; pfam06969 138119009678 GTP-binding protein LepA; Provisional; Region: PRK05433 138119009679 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 138119009680 G1 box; other site 138119009681 putative GEF interaction site [polypeptide binding]; other site 138119009682 GTP/Mg2+ binding site [chemical binding]; other site 138119009683 Switch I region; other site 138119009684 G2 box; other site 138119009685 G3 box; other site 138119009686 Switch II region; other site 138119009687 G4 box; other site 138119009688 G5 box; other site 138119009689 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 138119009690 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 138119009691 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 138119009692 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 138119009693 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119009694 L-aspartate oxidase; Provisional; Region: PRK06175 138119009695 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119009696 FMN-binding domain; Region: FMN_bind; pfam04205 138119009697 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 138119009698 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 138119009699 active site 138119009700 phosphorylation site [posttranslational modification] 138119009701 intermolecular recognition site; other site 138119009702 dimerization interface [polypeptide binding]; other site 138119009703 sensory histidine kinase DcuS; Provisional; Region: PRK11086 138119009704 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 138119009705 ATP binding site [chemical binding]; other site 138119009706 Mg2+ binding site [ion binding]; other site 138119009707 G-X-G motif; other site 138119009708 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 138119009709 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 138119009710 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 138119009711 stage II sporulation protein P; Region: spore_II_P; TIGR02867 138119009712 Membrane protein of unknown function; Region: DUF360; pfam04020 138119009713 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 138119009714 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 138119009715 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 138119009716 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 138119009717 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 138119009718 Competence protein; Region: Competence; pfam03772 138119009719 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 138119009720 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 138119009721 SLBB domain; Region: SLBB; pfam10531 138119009722 Helix-hairpin-helix motif; Region: HHH; pfam00633 138119009723 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 138119009724 BCCT family transporter; Region: BCCT; pfam02028 138119009725 Sensory domain found in PocR; Region: PocR; pfam10114 138119009726 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 138119009727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119009728 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119009729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119009730 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119009731 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119009732 B12 binding site [chemical binding]; other site 138119009733 cobalt ligand [ion binding]; other site 138119009734 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 138119009735 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119009736 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 138119009737 catalytic loop [active] 138119009738 iron binding site [ion binding]; other site 138119009739 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119009740 nucleotide binding site [chemical binding]; other site 138119009741 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 138119009742 BCCT family transporter; Region: BCCT; pfam02028 138119009743 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119009744 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119009745 B12 binding site [chemical binding]; other site 138119009746 cobalt ligand [ion binding]; other site 138119009747 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 138119009748 tetrahydromethanopterin S-methyltransferase subunit H; Provisional; Region: PRK00979 138119009749 Tetrahydromethanopterin S-methyltransferase, subunit H [Coenzyme metabolism]; Region: MtrH; cl15798 138119009750 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 138119009751 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 138119009752 HIGH motif; other site 138119009753 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 138119009754 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 138119009755 active site 138119009756 KMSKS motif; other site 138119009757 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 138119009758 tRNA binding surface [nucleotide binding]; other site 138119009759 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 138119009760 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009761 Zn2+ binding site [ion binding]; other site 138119009762 Mg2+ binding site [ion binding]; other site 138119009763 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 138119009764 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 138119009765 active site 138119009766 (T/H)XGH motif; other site 138119009767 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 138119009768 GTPase CgtA; Reviewed; Region: obgE; PRK12297 138119009769 GTP1/OBG; Region: GTP1_OBG; pfam01018 138119009770 Obg GTPase; Region: Obg; cd01898 138119009771 G1 box; other site 138119009772 GTP/Mg2+ binding site [chemical binding]; other site 138119009773 Switch I region; other site 138119009774 G2 box; other site 138119009775 G3 box; other site 138119009776 Switch II region; other site 138119009777 G4 box; other site 138119009778 G5 box; other site 138119009779 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 138119009780 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 138119009781 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 138119009782 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 138119009783 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 138119009784 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 138119009785 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 138119009786 homodimer interface [polypeptide binding]; other site 138119009787 oligonucleotide binding site [chemical binding]; other site 138119009788 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 138119009789 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 138119009790 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 138119009791 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 138119009792 B12 binding site [chemical binding]; other site 138119009793 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 138119009794 FeS/SAM binding site; other site 138119009795 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 138119009796 Peptidase family M50; Region: Peptidase_M50; pfam02163 138119009797 active site 138119009798 putative substrate binding region [chemical binding]; other site 138119009799 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119009800 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 138119009801 Septum formation topological specificity factor MinE; Region: MinE; cl00538 138119009802 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 138119009803 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 138119009804 Switch I; other site 138119009805 Switch II; other site 138119009806 septum formation inhibitor; Reviewed; Region: minC; PRK00513 138119009807 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 138119009808 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 138119009809 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 138119009810 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 138119009811 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 138119009812 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 138119009813 rod shape-determining protein MreC; Provisional; Region: PRK13922 138119009814 rod shape-determining protein MreC; Region: MreC; pfam04085 138119009815 rod shape-determining protein MreB; Provisional; Region: PRK13927 138119009816 MreB and similar proteins; Region: MreB_like; cd10225 138119009817 nucleotide binding site [chemical binding]; other site 138119009818 Mg binding site [ion binding]; other site 138119009819 putative protofilament interaction site [polypeptide binding]; other site 138119009820 RodZ interaction site [polypeptide binding]; other site 138119009821 hypothetical protein; Reviewed; Region: PRK00024 138119009822 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 138119009823 MPN+ (JAMM) motif; other site 138119009824 Zinc-binding site [ion binding]; other site 138119009825 Maf-like protein; Reviewed; Region: PRK00078 138119009826 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 138119009827 active site 138119009828 dimer interface [polypeptide binding]; other site 138119009829 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 138119009830 Aspartase; Region: Aspartase; cd01357 138119009831 active sites [active] 138119009832 tetramer interface [polypeptide binding]; other site 138119009833 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 138119009834 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 138119009835 CoA binding domain; Region: CoA_binding; smart00881 138119009836 Sporulation related domain; Region: SPOR; cl10051 138119009837 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 138119009838 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 138119009839 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 138119009840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119009841 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119009842 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 138119009843 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 138119009844 HIGH motif; other site 138119009845 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 138119009846 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 138119009847 active site 138119009848 KMSKS motif; other site 138119009849 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 138119009850 tRNA binding surface [nucleotide binding]; other site 138119009851 anticodon binding site; other site 138119009852 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 138119009853 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119009854 dimerization interface [polypeptide binding]; other site 138119009855 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119009856 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119009857 dimer interface [polypeptide binding]; other site 138119009858 putative CheW interface [polypeptide binding]; other site 138119009859 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 138119009860 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 138119009861 active site 138119009862 FMN binding site [chemical binding]; other site 138119009863 substrate binding site [chemical binding]; other site 138119009864 3Fe-4S cluster binding site [ion binding]; other site 138119009865 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 138119009866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119009867 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 138119009868 dinuclear metal binding motif [ion binding]; other site 138119009869 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 138119009870 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 138119009871 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 138119009872 G1 box; other site 138119009873 GTP/Mg2+ binding site [chemical binding]; other site 138119009874 Switch I region; other site 138119009875 G2 box; other site 138119009876 G3 box; other site 138119009877 Switch II region; other site 138119009878 G4 box; other site 138119009879 G5 box; other site 138119009880 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 138119009881 Found in ATP-dependent protease La (LON); Region: LON; smart00464 138119009882 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 138119009883 Walker A motif; other site 138119009884 ATP binding site [chemical binding]; other site 138119009885 Walker B motif; other site 138119009886 arginine finger; other site 138119009887 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 138119009888 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 138119009889 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 138119009890 Walker A motif; other site 138119009891 ATP binding site [chemical binding]; other site 138119009892 Walker B motif; other site 138119009893 arginine finger; other site 138119009894 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 138119009895 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 138119009896 active site 138119009897 ribulose/triose binding site [chemical binding]; other site 138119009898 phosphate binding site [ion binding]; other site 138119009899 substrate (anthranilate) binding pocket [chemical binding]; other site 138119009900 product (indole) binding pocket [chemical binding]; other site 138119009901 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...; Region: PRAI; cd00405 138119009902 active site 138119009903 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 138119009904 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 138119009905 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 138119009906 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 138119009907 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 138119009908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119009909 catalytic residue [active] 138119009910 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 138119009911 substrate binding site [chemical binding]; other site 138119009912 active site 138119009913 catalytic residues [active] 138119009914 heterodimer interface [polypeptide binding]; other site 138119009915 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 138119009916 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 138119009917 Glutamine amidotransferase class-I; Region: GATase; pfam00117 138119009918 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 138119009919 glutamine binding [chemical binding]; other site 138119009920 catalytic triad [active] 138119009921 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 138119009922 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 138119009923 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 138119009924 Walker A motif; other site 138119009925 ATP binding site [chemical binding]; other site 138119009926 Walker B motif; other site 138119009927 arginine finger; other site 138119009928 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 138119009929 trigger factor; Provisional; Region: tig; PRK01490 138119009930 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 138119009931 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 138119009932 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 138119009933 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 138119009934 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 138119009935 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 138119009936 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119009937 Walker A/P-loop; other site 138119009938 ATP binding site [chemical binding]; other site 138119009939 Q-loop/lid; other site 138119009940 ABC transporter signature motif; other site 138119009941 Walker B; other site 138119009942 D-loop; other site 138119009943 H-loop/switch region; other site 138119009944 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 138119009945 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119009946 Walker A/P-loop; other site 138119009947 ATP binding site [chemical binding]; other site 138119009948 Q-loop/lid; other site 138119009949 ABC transporter signature motif; other site 138119009950 Walker B; other site 138119009951 D-loop; other site 138119009952 H-loop/switch region; other site 138119009953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119009954 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 138119009955 dimer interface [polypeptide binding]; other site 138119009956 conserved gate region; other site 138119009957 putative PBP binding loops; other site 138119009958 ABC-ATPase subunit interface; other site 138119009959 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119009960 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 138119009961 dimer interface [polypeptide binding]; other site 138119009962 conserved gate region; other site 138119009963 putative PBP binding loops; other site 138119009964 ABC-ATPase subunit interface; other site 138119009965 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119009966 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_21; cd08520 138119009967 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 138119009968 S-adenosylmethionine binding site [chemical binding]; other site 138119009969 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 138119009970 putative DNA binding site [nucleotide binding]; other site 138119009971 dimerization interface [polypeptide binding]; other site 138119009972 putative Zn2+ binding site [ion binding]; other site 138119009973 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 138119009974 FAD binding domain; Region: FAD_binding_4; pfam01565 138119009975 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 138119009976 FAD binding domain; Region: FAD_binding_4; pfam01565 138119009977 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 138119009978 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119009979 Cysteine-rich domain; Region: CCG; pfam02754 138119009980 Cysteine-rich domain; Region: CCG; pfam02754 138119009981 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 138119009982 Transcriptional regulator [Transcription]; Region: IclR; COG1414 138119009983 Bacterial transcriptional regulator; Region: IclR; pfam01614 138119009984 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 138119009985 active site 138119009986 dimerization interface [polypeptide binding]; other site 138119009987 ribonuclease PH; Reviewed; Region: rph; PRK00173 138119009988 Ribonuclease PH; Region: RNase_PH_bact; cd11362 138119009989 hexamer interface [polypeptide binding]; other site 138119009990 active site 138119009991 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 138119009992 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 138119009993 S-adenosylmethionine binding site [chemical binding]; other site 138119009994 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009995 Zn2+ binding site [ion binding]; other site 138119009996 Mg2+ binding site [ion binding]; other site 138119009997 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119009998 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119009999 Zn2+ binding site [ion binding]; other site 138119010000 Mg2+ binding site [ion binding]; other site 138119010001 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 138119010002 heme-binding site [chemical binding]; other site 138119010003 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119010004 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119010005 dimer interface [polypeptide binding]; other site 138119010006 putative CheW interface [polypeptide binding]; other site 138119010007 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119010008 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 138119010009 Fumarase C-terminus; Region: Fumerase_C; cl00795 138119010010 fumarate hydratase; Provisional; Region: PRK06246 138119010011 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 138119010012 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 138119010013 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 138119010014 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 138119010015 dimer interface [polypeptide binding]; other site 138119010016 active site 138119010017 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 138119010018 substrate binding site [chemical binding]; other site 138119010019 B12 cofactor binding site [chemical binding]; other site 138119010020 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 138119010021 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 138119010022 MutL protein; Region: MutL; pfam13941 138119010023 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 138119010024 B12 binding site [chemical binding]; other site 138119010025 heterodimer interface [polypeptide binding]; other site 138119010026 cobalt ligand [ion binding]; other site 138119010027 glutamate racemase; Provisional; Region: PRK00865 138119010028 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119010029 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119010030 Zn2+ binding site [ion binding]; other site 138119010031 Mg2+ binding site [ion binding]; other site 138119010032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119010033 MarR family; Region: MarR; pfam01047 138119010034 MarR family; Region: MarR_2; cl17246 138119010035 Sporulation and spore germination; Region: Germane; pfam10646 138119010036 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 138119010037 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 138119010038 active site 138119010039 phosphorylation site [posttranslational modification] 138119010040 intermolecular recognition site; other site 138119010041 dimerization interface [polypeptide binding]; other site 138119010042 LytTr DNA-binding domain; Region: LytTR; smart00850 138119010043 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 138119010044 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 138119010045 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 138119010046 active site 138119010047 catalytic triad [active] 138119010048 oxyanion hole [active] 138119010049 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 138119010050 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119010051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119010052 DNA-binding site [nucleotide binding]; DNA binding site 138119010053 FCD domain; Region: FCD; pfam07729 138119010054 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 138119010055 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 138119010056 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 138119010057 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 138119010058 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 138119010059 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 138119010060 Protein of unknown function (DUF964); Region: DUF964; pfam06133 138119010061 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 138119010062 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119010063 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 138119010064 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 138119010065 homodimer interface [polypeptide binding]; other site 138119010066 metal binding site [ion binding]; metal-binding site 138119010067 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 138119010068 C-terminal peptidase (prc); Region: prc; TIGR00225 138119010069 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 138119010070 protein binding site [polypeptide binding]; other site 138119010071 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 138119010072 Catalytic dyad [active] 138119010073 Bacterial Ig-like domain; Region: Big_5; pfam13205 138119010074 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 138119010075 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 138119010076 minor groove reading motif; other site 138119010077 helix-hairpin-helix signature motif; other site 138119010078 substrate binding pocket [chemical binding]; other site 138119010079 active site 138119010080 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 138119010081 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 138119010082 DNA binding and oxoG recognition site [nucleotide binding] 138119010083 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 138119010084 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 138119010085 homodimer interface [polypeptide binding]; other site 138119010086 substrate-cofactor binding pocket; other site 138119010087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119010088 catalytic residue [active] 138119010089 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119010090 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119010091 dimerization interface [polypeptide binding]; other site 138119010092 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119010093 dimer interface [polypeptide binding]; other site 138119010094 putative CheW interface [polypeptide binding]; other site 138119010095 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 138119010096 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 138119010097 anti sigma factor interaction site; other site 138119010098 regulatory phosphorylation site [posttranslational modification]; other site 138119010099 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 138119010100 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 138119010101 Mg2+ binding site [ion binding]; other site 138119010102 G-X-G motif; other site 138119010103 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010104 PAS domain; Region: PAS_9; pfam13426 138119010105 putative active site [active] 138119010106 heme pocket [chemical binding]; other site 138119010107 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 138119010108 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 138119010109 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119010110 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119010111 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 138119010112 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 138119010113 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 138119010114 VanW like protein; Region: VanW; pfam04294 138119010115 G5 domain; Region: G5; pfam07501 138119010116 Uncharacterized conserved protein [Function unknown]; Region: COG3465 138119010117 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 138119010118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119010119 Zn2+ binding site [ion binding]; other site 138119010120 Mg2+ binding site [ion binding]; other site 138119010121 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 138119010122 non-specific DNA binding site [nucleotide binding]; other site 138119010123 salt bridge; other site 138119010124 sequence-specific DNA binding site [nucleotide binding]; other site 138119010125 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119010126 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 138119010127 non-specific DNA binding site [nucleotide binding]; other site 138119010128 salt bridge; other site 138119010129 sequence-specific DNA binding site [nucleotide binding]; other site 138119010130 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 138119010131 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 138119010132 homodimer interface [polypeptide binding]; other site 138119010133 substrate-cofactor binding pocket; other site 138119010134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119010135 catalytic residue [active] 138119010136 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 138119010137 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 138119010138 glutamine binding [chemical binding]; other site 138119010139 catalytic triad [active] 138119010140 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 138119010141 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 138119010142 chorismate binding enzyme; Region: Chorismate_bind; cl10555 138119010143 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119010144 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 138119010145 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119010146 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119010147 catalytic residues [active] 138119010148 catalytic nucleophile [active] 138119010149 Recombinase; Region: Recombinase; pfam07508 138119010150 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 138119010151 AAA domain; Region: AAA_14; pfam13173 138119010152 Predicted integral membrane protein [Function unknown]; Region: COG5652 138119010153 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 138119010154 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 138119010155 NAD binding site [chemical binding]; other site 138119010156 homodimer interface [polypeptide binding]; other site 138119010157 active site 138119010158 substrate binding site [chemical binding]; other site 138119010159 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 138119010160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119010161 Zn2+ binding site [ion binding]; other site 138119010162 Mg2+ binding site [ion binding]; other site 138119010163 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 138119010164 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 138119010165 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 138119010166 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119010167 putative transposase OrfB; Reviewed; Region: PHA02517 138119010168 HTH-like domain; Region: HTH_21; pfam13276 138119010169 Integrase core domain; Region: rve; pfam00665 138119010170 Integrase core domain; Region: rve_3; pfam13683 138119010171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119010172 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 138119010173 DNA binding site [nucleotide binding] 138119010174 active site 138119010175 Int/Topo IB signature motif; other site 138119010176 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 138119010177 active site 138119010178 Int/Topo IB signature motif; other site 138119010179 DNA binding site [nucleotide binding] 138119010180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 138119010181 Integrase core domain; Region: rve; pfam00665 138119010182 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119010183 putative acyltransferase; Provisional; Region: PRK05790 138119010184 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119010185 dimer interface [polypeptide binding]; other site 138119010186 active site 138119010187 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 138119010188 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 138119010189 Walker A/P-loop; other site 138119010190 ATP binding site [chemical binding]; other site 138119010191 Q-loop/lid; other site 138119010192 ABC transporter signature motif; other site 138119010193 Walker B; other site 138119010194 D-loop; other site 138119010195 H-loop/switch region; other site 138119010196 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 138119010197 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 138119010198 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 138119010199 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 138119010200 substrate binding site [chemical binding]; other site 138119010201 ATP binding site [chemical binding]; other site 138119010202 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 138119010203 active site 138119010204 catalytic residues [active] 138119010205 metal binding site [ion binding]; metal-binding site 138119010206 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 138119010207 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 138119010208 ligand binding site; other site 138119010209 tetramer interface; other site 138119010210 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 138119010211 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 138119010212 active site 138119010213 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 138119010214 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 138119010215 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 138119010216 FeS/SAM binding site; other site 138119010217 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 138119010218 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 138119010219 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 138119010220 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 138119010221 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 138119010222 NTP binding site [chemical binding]; other site 138119010223 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 138119010224 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119010225 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119010226 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 138119010227 putative trimer interface [polypeptide binding]; other site 138119010228 putative CoA binding site [chemical binding]; other site 138119010229 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 138119010230 putative trimer interface [polypeptide binding]; other site 138119010231 putative active site [active] 138119010232 putative substrate binding site [chemical binding]; other site 138119010233 putative CoA binding site [chemical binding]; other site 138119010234 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 138119010235 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 138119010236 inhibitor-cofactor binding pocket; inhibition site 138119010237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119010238 catalytic residue [active] 138119010239 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 138119010240 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 138119010241 NAD binding site [chemical binding]; other site 138119010242 substrate binding site [chemical binding]; other site 138119010243 homodimer interface [polypeptide binding]; other site 138119010244 active site 138119010245 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 138119010246 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 138119010247 substrate binding site; other site 138119010248 tetramer interface; other site 138119010249 WxcM-like, C-terminal; Region: FdtA; pfam05523 138119010250 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 138119010251 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 138119010252 active site 138119010253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119010254 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 138119010255 putative ADP-binding pocket [chemical binding]; other site 138119010256 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 138119010257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119010258 putative ADP-binding pocket [chemical binding]; other site 138119010259 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 138119010260 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 138119010261 Bacterial sugar transferase; Region: Bac_transf; pfam02397 138119010262 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 138119010263 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 138119010264 Bacterial Ig-like domain 2; Region: BID_2; smart00635 138119010265 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010266 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010267 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010268 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 138119010269 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 138119010270 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 138119010271 Interdomain contacts; other site 138119010272 Cytokine receptor motif; other site 138119010273 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010274 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010275 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010276 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 138119010277 Interdomain contacts; other site 138119010278 Cytokine receptor motif; other site 138119010279 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 138119010280 Interdomain contacts; other site 138119010281 Cytokine receptor motif; other site 138119010282 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010283 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010284 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010285 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 138119010286 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 138119010287 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 138119010288 Leucine rich repeat; Region: LRR_8; pfam13855 138119010289 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 138119010290 O-Antigen ligase; Region: Wzy_C; pfam04932 138119010291 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010292 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010293 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010294 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010295 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 138119010296 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 138119010297 active site 138119010298 metal binding site [ion binding]; metal-binding site 138119010299 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 138119010300 Fic family protein [Function unknown]; Region: COG3177 138119010301 Fic/DOC family; Region: Fic; pfam02661 138119010302 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 138119010303 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010304 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010305 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010306 Glyco_18 domain; Region: Glyco_18; smart00636 138119010307 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 138119010308 active site 138119010309 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 138119010310 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 138119010311 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 138119010312 inhibitor-cofactor binding pocket; inhibition site 138119010313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119010314 catalytic residue [active] 138119010315 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 138119010316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119010317 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 138119010318 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119010319 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 138119010320 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 138119010321 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 138119010322 O-Antigen ligase; Region: Wzy_C; pfam04932 138119010323 putative glycosyl transferase; Provisional; Region: PRK10307 138119010324 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 138119010325 Bacterial sugar transferase; Region: Bac_transf; pfam02397 138119010326 AAA ATPase domain; Region: AAA_16; pfam13191 138119010327 Archaeal ATPase; Region: Arch_ATPase; pfam01637 138119010328 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 138119010329 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 138119010330 putative trimer interface [polypeptide binding]; other site 138119010331 putative CoA binding site [chemical binding]; other site 138119010332 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 138119010333 putative trimer interface [polypeptide binding]; other site 138119010334 putative active site [active] 138119010335 putative substrate binding site [chemical binding]; other site 138119010336 putative CoA binding site [chemical binding]; other site 138119010337 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 138119010338 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 138119010339 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 138119010340 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 138119010341 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119010342 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 138119010343 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 138119010344 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 138119010345 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 138119010346 NAD(P) binding site [chemical binding]; other site 138119010347 homodimer interface [polypeptide binding]; other site 138119010348 substrate binding site [chemical binding]; other site 138119010349 active site 138119010350 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 138119010351 N-acetyl-D-glucosamine binding site [chemical binding]; other site 138119010352 catalytic residue [active] 138119010353 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010354 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010355 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010356 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 138119010357 SdpI/YhfL protein family; Region: SdpI; pfam13630 138119010358 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 138119010359 dimerization interface [polypeptide binding]; other site 138119010360 putative DNA binding site [nucleotide binding]; other site 138119010361 putative Zn2+ binding site [ion binding]; other site 138119010362 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 138119010363 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 138119010364 active site 138119010365 tetramer interface; other site 138119010366 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 138119010367 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 138119010368 oligomer interface [polypeptide binding]; other site 138119010369 active site residues [active] 138119010370 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 138119010371 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119010372 dimer interface [polypeptide binding]; other site 138119010373 putative CheW interface [polypeptide binding]; other site 138119010374 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 138119010375 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119010376 Cysteine-rich domain; Region: CCG; pfam02754 138119010377 Cysteine-rich domain; Region: CCG; pfam02754 138119010378 FAD binding domain; Region: FAD_binding_4; pfam01565 138119010379 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 138119010380 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119010381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119010382 DNA-binding site [nucleotide binding]; DNA binding site 138119010383 FCD domain; Region: FCD; pfam07729 138119010384 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 138119010385 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119010386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119010387 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119010388 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119010389 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119010390 Protein of unknown function (DUF445); Region: DUF445; pfam04286 138119010391 Protein of unknown function (DUF445); Region: DUF445; pfam04286 138119010392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119010393 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119010394 4Fe-4S binding domain; Region: Fer4; cl02805 138119010395 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119010396 Cysteine-rich domain; Region: CCG; pfam02754 138119010397 Cysteine-rich domain; Region: CCG; pfam02754 138119010398 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 138119010399 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 138119010400 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 138119010401 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 138119010402 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 138119010403 active site 138119010404 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 138119010405 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 138119010406 dimer interface [polypeptide binding]; other site 138119010407 active site 138119010408 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 138119010409 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119010410 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119010411 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 138119010412 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 138119010413 substrate binding site [chemical binding]; other site 138119010414 oxyanion hole (OAH) forming residues; other site 138119010415 trimer interface [polypeptide binding]; other site 138119010416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119010417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119010418 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 138119010419 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119010420 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 138119010421 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119010422 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 138119010423 Ligand binding site [chemical binding]; other site 138119010424 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119010425 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119010426 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119010427 active site 138119010428 FMN binding site [chemical binding]; other site 138119010429 substrate binding site [chemical binding]; other site 138119010430 putative catalytic residue [active] 138119010431 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 138119010432 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 138119010433 substrate binding site [chemical binding]; other site 138119010434 oxyanion hole (OAH) forming residues; other site 138119010435 trimer interface [polypeptide binding]; other site 138119010436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 138119010437 hybrid cluster protein; Provisional; Region: PRK05290 138119010438 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 138119010439 ACS interaction site; other site 138119010440 CODH interaction site; other site 138119010441 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 138119010442 hybrid metal cluster; other site 138119010443 Response regulator receiver domain; Region: Response_reg; pfam00072 138119010444 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 138119010445 active site 138119010446 phosphorylation site [posttranslational modification] 138119010447 intermolecular recognition site; other site 138119010448 dimerization interface [polypeptide binding]; other site 138119010449 PAS domain S-box; Region: sensory_box; TIGR00229 138119010450 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010451 putative active site [active] 138119010452 heme pocket [chemical binding]; other site 138119010453 PAS domain; Region: PAS_9; pfam13426 138119010454 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010455 putative active site [active] 138119010456 heme pocket [chemical binding]; other site 138119010457 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119010458 PAS domain; Region: PAS_8; pfam13188 138119010459 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 138119010460 dimer interface [polypeptide binding]; other site 138119010461 phosphorylation site [posttranslational modification] 138119010462 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 138119010463 ATP binding site [chemical binding]; other site 138119010464 Mg2+ binding site [ion binding]; other site 138119010465 G-X-G motif; other site 138119010466 Response regulator receiver domain; Region: Response_reg; pfam00072 138119010467 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 138119010468 active site 138119010469 phosphorylation site [posttranslational modification] 138119010470 intermolecular recognition site; other site 138119010471 dimerization interface [polypeptide binding]; other site 138119010472 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 138119010473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119010474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119010475 Cache domain; Region: Cache_1; pfam02743 138119010476 HAMP domain; Region: HAMP; pfam00672 138119010477 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119010478 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119010479 dimer interface [polypeptide binding]; other site 138119010480 putative CheW interface [polypeptide binding]; other site 138119010481 PAS fold; Region: PAS; pfam00989 138119010482 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010483 putative active site [active] 138119010484 heme pocket [chemical binding]; other site 138119010485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119010486 metal binding site [ion binding]; metal-binding site 138119010487 active site 138119010488 I-site; other site 138119010489 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119010490 Predicted transcriptional regulator with an HTH domain [Transcription]; Region: COG4800 138119010491 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119010492 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 138119010493 non-specific DNA binding site [nucleotide binding]; other site 138119010494 salt bridge; other site 138119010495 sequence-specific DNA binding site [nucleotide binding]; other site 138119010496 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119010497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119010498 metal binding site [ion binding]; metal-binding site 138119010499 active site 138119010500 I-site; other site 138119010501 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119010502 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119010503 Walker A/P-loop; other site 138119010504 ATP binding site [chemical binding]; other site 138119010505 Q-loop/lid; other site 138119010506 ABC transporter signature motif; other site 138119010507 Walker B; other site 138119010508 D-loop; other site 138119010509 H-loop/switch region; other site 138119010510 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 138119010511 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 138119010512 dimer interface [polypeptide binding]; other site 138119010513 conserved gate region; other site 138119010514 putative PBP binding loops; other site 138119010515 ABC-ATPase subunit interface; other site 138119010516 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138119010517 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 138119010518 substrate binding pocket [chemical binding]; other site 138119010519 membrane-bound complex binding site; other site 138119010520 hinge residues; other site 138119010521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010522 Walker B; other site 138119010523 D-loop; other site 138119010524 H-loop/switch region; other site 138119010525 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119010526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010527 Walker A/P-loop; other site 138119010528 ATP binding site [chemical binding]; other site 138119010529 Q-loop/lid; other site 138119010530 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119010531 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 138119010532 TM-ABC transporter signature motif; other site 138119010533 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 138119010534 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 138119010535 zinc binding site [ion binding]; other site 138119010536 putative ligand binding site [chemical binding]; other site 138119010537 PAS domain S-box; Region: sensory_box; TIGR00229 138119010538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010539 putative active site [active] 138119010540 heme pocket [chemical binding]; other site 138119010541 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119010542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119010543 metal binding site [ion binding]; metal-binding site 138119010544 active site 138119010545 I-site; other site 138119010546 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 138119010547 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119010548 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119010549 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 138119010550 dimer interface [polypeptide binding]; other site 138119010551 conserved gate region; other site 138119010552 putative PBP binding loops; other site 138119010553 ABC-ATPase subunit interface; other site 138119010554 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119010555 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119010556 Walker A/P-loop; other site 138119010557 ATP binding site [chemical binding]; other site 138119010558 Q-loop/lid; other site 138119010559 ABC transporter signature motif; other site 138119010560 Walker B; other site 138119010561 D-loop; other site 138119010562 H-loop/switch region; other site 138119010563 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119010564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010565 Walker A/P-loop; other site 138119010566 ATP binding site [chemical binding]; other site 138119010567 Q-loop/lid; other site 138119010568 ABC transporter signature motif; other site 138119010569 Walker B; other site 138119010570 D-loop; other site 138119010571 H-loop/switch region; other site 138119010572 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 138119010573 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 138119010574 putative PBP binding loops; other site 138119010575 dimer interface [polypeptide binding]; other site 138119010576 ABC-ATPase subunit interface; other site 138119010577 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 138119010578 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 138119010579 DNA binding domain, excisionase family; Region: excise; TIGR01764 138119010580 PBP superfamily domain; Region: PBP_like; pfam12727 138119010581 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 138119010582 non-specific DNA binding site [nucleotide binding]; other site 138119010583 salt bridge; other site 138119010584 sequence-specific DNA binding site [nucleotide binding]; other site 138119010585 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 138119010586 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 138119010587 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 138119010588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119010589 homodimer interface [polypeptide binding]; other site 138119010590 catalytic residue [active] 138119010591 GAF domain; Region: GAF; pfam01590 138119010592 GAF domain; Region: GAF_2; pfam13185 138119010593 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 138119010594 GAF domain; Region: GAF; cl17456 138119010595 PAS domain S-box; Region: sensory_box; TIGR00229 138119010596 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010597 putative active site [active] 138119010598 heme pocket [chemical binding]; other site 138119010599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119010600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119010601 metal binding site [ion binding]; metal-binding site 138119010602 active site 138119010603 I-site; other site 138119010604 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119010605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119010606 Zn2+ binding site [ion binding]; other site 138119010607 Mg2+ binding site [ion binding]; other site 138119010608 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 138119010609 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119010610 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119010611 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 138119010612 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 138119010613 active site 138119010614 catalytic triad [active] 138119010615 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119010616 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 138119010617 Walker A motif; other site 138119010618 ATP binding site [chemical binding]; other site 138119010619 Walker B motif; other site 138119010620 arginine finger; other site 138119010621 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 138119010622 Rubredoxin; Region: Rubredoxin; pfam00301 138119010623 iron binding site [ion binding]; other site 138119010624 Rubrerythrin [Energy production and conversion]; Region: COG1592 138119010625 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 138119010626 diiron binding motif [ion binding]; other site 138119010627 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119010628 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119010629 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119010630 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119010631 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010632 molybdopterin cofactor binding site; other site 138119010633 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119010634 molybdopterin cofactor binding site; other site 138119010635 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119010636 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119010637 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119010638 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119010639 putative [4Fe-4S] binding site [ion binding]; other site 138119010640 putative molybdopterin cofactor binding site [chemical binding]; other site 138119010641 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 138119010642 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119010643 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 138119010644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 138119010645 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 138119010646 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 138119010647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 138119010648 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 138119010649 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 138119010650 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 138119010651 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 138119010652 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 138119010653 active site 138119010654 Tetratricopeptide repeat; Region: TPR_16; pfam13432 138119010655 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 138119010656 TPR motif; other site 138119010657 binding surface 138119010658 DNA polymerase IV; Reviewed; Region: PRK03103 138119010659 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 138119010660 active site 138119010661 DNA binding site [nucleotide binding] 138119010662 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 138119010663 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119010664 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119010665 catalytic residues [active] 138119010666 catalytic nucleophile [active] 138119010667 Recombinase; Region: Recombinase; pfam07508 138119010668 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119010669 Recombinase; Region: Recombinase; pfam07508 138119010670 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119010671 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119010672 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119010673 catalytic residues [active] 138119010674 catalytic nucleophile [active] 138119010675 Recombinase; Region: Recombinase; pfam07508 138119010676 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119010677 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119010678 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119010679 catalytic residues [active] 138119010680 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119010681 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119010682 catalytic residues [active] 138119010683 catalytic nucleophile [active] 138119010684 Transcriptional regulators [Transcription]; Region: MarR; COG1846 138119010685 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 138119010686 putative Zn2+ binding site [ion binding]; other site 138119010687 putative DNA binding site [nucleotide binding]; other site 138119010688 FMN-binding domain; Region: FMN_bind; pfam04205 138119010689 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 138119010690 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119010691 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119010692 PBP superfamily domain; Region: PBP_like_2; cl17296 138119010693 DnaA N-terminal domain; Region: DnaA_N; pfam11638 138119010694 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 138119010695 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 138119010696 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 138119010697 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 138119010698 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 138119010699 P loop nucleotide binding; other site 138119010700 switch II; other site 138119010701 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 138119010702 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 138119010703 P loop nucleotide binding; other site 138119010704 switch II; other site 138119010705 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119010706 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 138119010707 DNA binding residues [nucleotide binding] 138119010708 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 138119010709 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 138119010710 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 138119010711 dimerization interface [polypeptide binding]; other site 138119010712 ligand binding site [chemical binding]; other site 138119010713 NADP binding site [chemical binding]; other site 138119010714 catalytic site [active] 138119010715 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 138119010716 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 138119010717 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 138119010718 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 138119010719 inhibitor site; inhibition site 138119010720 active site 138119010721 dimer interface [polypeptide binding]; other site 138119010722 catalytic residue [active] 138119010723 4Fe-4S binding domain; Region: Fer4; pfam00037 138119010724 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119010725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 138119010726 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 138119010727 4Fe-4S binding domain; Region: Fer4; pfam00037 138119010728 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119010729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 138119010730 6-phosphogluconate dehydratase; Region: edd; TIGR01196 138119010731 Dehydratase family; Region: ILVD_EDD; pfam00920 138119010732 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 138119010733 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 138119010734 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 138119010735 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 138119010736 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 138119010737 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 138119010738 Propionate catabolism activator; Region: PrpR_N; pfam06506 138119010739 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 138119010740 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 138119010741 Walker A motif; other site 138119010742 ATP binding site [chemical binding]; other site 138119010743 Walker B motif; other site 138119010744 arginine finger; other site 138119010745 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 138119010746 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 138119010747 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 138119010748 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 138119010749 Part of AAA domain; Region: AAA_19; pfam13245 138119010750 Family description; Region: UvrD_C_2; pfam13538 138119010751 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 138119010752 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119010753 DNA binding residues [nucleotide binding] 138119010754 dimer interface [polypeptide binding]; other site 138119010755 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 138119010756 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 138119010757 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119010758 ABC transporter; Region: ABC_tran_2; pfam12848 138119010759 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119010760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119010761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119010762 Bacterial transcriptional repressor; Region: TetR; pfam13972 138119010763 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 138119010764 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 138119010765 ABC-2 type transporter; Region: ABC2_membrane; cl17235 138119010766 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 138119010767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010768 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 138119010769 Walker A/P-loop; other site 138119010770 ATP binding site [chemical binding]; other site 138119010771 Q-loop/lid; other site 138119010772 ABC transporter signature motif; other site 138119010773 Walker B; other site 138119010774 D-loop; other site 138119010775 H-loop/switch region; other site 138119010776 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 138119010777 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119010778 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010779 molybdopterin cofactor binding site; other site 138119010780 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119010781 molybdopterin cofactor binding site; other site 138119010782 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119010783 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119010784 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119010785 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010786 molybdopterin cofactor binding site; other site 138119010787 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119010788 molybdopterin cofactor binding site; other site 138119010789 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119010790 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119010791 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 138119010792 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 138119010793 zinc binding site [ion binding]; other site 138119010794 putative ligand binding site [chemical binding]; other site 138119010795 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119010796 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 138119010797 TM-ABC transporter signature motif; other site 138119010798 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 138119010799 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010800 Walker A/P-loop; other site 138119010801 ATP binding site [chemical binding]; other site 138119010802 Q-loop/lid; other site 138119010803 ABC transporter signature motif; other site 138119010804 Walker B; other site 138119010805 D-loop; other site 138119010806 H-loop/switch region; other site 138119010807 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 138119010808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119010809 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119010810 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 138119010811 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 138119010812 S-adenosylmethionine binding site [chemical binding]; other site 138119010813 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119010814 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 138119010815 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119010816 Walker A/P-loop; other site 138119010817 ATP binding site [chemical binding]; other site 138119010818 Q-loop/lid; other site 138119010819 ABC transporter signature motif; other site 138119010820 Walker B; other site 138119010821 D-loop; other site 138119010822 H-loop/switch region; other site 138119010823 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119010824 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119010825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119010826 Walker A/P-loop; other site 138119010827 ATP binding site [chemical binding]; other site 138119010828 Q-loop/lid; other site 138119010829 ABC transporter signature motif; other site 138119010830 Walker B; other site 138119010831 D-loop; other site 138119010832 H-loop/switch region; other site 138119010833 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119010834 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119010835 Predicted membrane protein [Function unknown]; Region: COG2323 138119010836 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 138119010837 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010838 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 138119010839 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010840 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119010841 Penicillinase repressor; Region: Pencillinase_R; pfam03965 138119010842 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 138119010843 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 138119010844 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 138119010845 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 138119010846 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 138119010847 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 138119010848 FeS/SAM binding site; other site 138119010849 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 138119010850 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119010851 putative active site [active] 138119010852 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 138119010853 Na binding site [ion binding]; other site 138119010854 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 138119010855 FeS/SAM binding site; other site 138119010856 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119010857 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 138119010858 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 138119010859 FeS/SAM binding site; other site 138119010860 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 138119010861 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 138119010862 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119010863 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119010864 Walker A/P-loop; other site 138119010865 ATP binding site [chemical binding]; other site 138119010866 Q-loop/lid; other site 138119010867 ABC transporter signature motif; other site 138119010868 Walker B; other site 138119010869 D-loop; other site 138119010870 H-loop/switch region; other site 138119010871 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119010872 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 138119010873 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 138119010874 NMT1/THI5 like; Region: NMT1; pfam09084 138119010875 membrane-bound complex binding site; other site 138119010876 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119010877 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119010878 Walker A/P-loop; other site 138119010879 ATP binding site [chemical binding]; other site 138119010880 Q-loop/lid; other site 138119010881 ABC transporter signature motif; other site 138119010882 Walker B; other site 138119010883 D-loop; other site 138119010884 H-loop/switch region; other site 138119010885 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 138119010886 dimer interface [polypeptide binding]; other site 138119010887 conserved gate region; other site 138119010888 putative PBP binding loops; other site 138119010889 ABC-ATPase subunit interface; other site 138119010890 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119010891 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 138119010892 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 138119010893 amphipathic channel; other site 138119010894 Asn-Pro-Ala signature motifs; other site 138119010895 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 138119010896 S-adenosylmethionine binding site [chemical binding]; other site 138119010897 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 138119010898 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 138119010899 metal ion-dependent adhesion site (MIDAS); other site 138119010900 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 138119010901 Walker A motif; other site 138119010902 ATP binding site [chemical binding]; other site 138119010903 Walker B motif; other site 138119010904 arginine finger; other site 138119010905 FMN-binding domain; Region: FMN_bind; pfam04205 138119010906 hypothetical protein; Validated; Region: PRK07121 138119010907 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119010908 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 138119010909 Walker A motif; other site 138119010910 ATP binding site [chemical binding]; other site 138119010911 Walker B motif; other site 138119010912 arginine finger; other site 138119010913 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119010914 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 138119010915 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 138119010916 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119010917 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119010918 putative [Fe4-S4] binding site [ion binding]; other site 138119010919 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119010920 putative molybdopterin cofactor binding site [chemical binding]; other site 138119010921 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119010922 putative molybdopterin cofactor binding site; other site 138119010923 trigger factor; Region: tig; TIGR00115 138119010924 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 138119010925 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 138119010926 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 138119010927 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119010928 active site 138119010929 FMN binding site [chemical binding]; other site 138119010930 substrate binding site [chemical binding]; other site 138119010931 putative catalytic residue [active] 138119010932 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 138119010933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 138119010934 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119010935 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119010936 putative [Fe4-S4] binding site [ion binding]; other site 138119010937 putative molybdopterin cofactor binding site [chemical binding]; other site 138119010938 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010939 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119010940 putative molybdopterin cofactor binding site; other site 138119010941 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 138119010942 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119010943 FeS/SAM binding site; other site 138119010944 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 138119010945 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119010946 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119010947 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119010948 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119010949 putative [Fe4-S4] binding site [ion binding]; other site 138119010950 putative molybdopterin cofactor binding site [chemical binding]; other site 138119010951 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010952 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119010953 putative molybdopterin cofactor binding site; other site 138119010954 benzoate transport; Region: 2A0115; TIGR00895 138119010955 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 138119010956 putative substrate translocation pore; other site 138119010957 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 138119010958 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 138119010959 putative substrate translocation pore; other site 138119010960 D-galactonate transporter; Region: 2A0114; TIGR00893 138119010961 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119010962 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 138119010963 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119010964 putative [Fe4-S4] binding site [ion binding]; other site 138119010965 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119010966 putative molybdopterin cofactor binding site [chemical binding]; other site 138119010967 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119010968 putative molybdopterin cofactor binding site; other site 138119010969 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 138119010970 active site 138119010971 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119010972 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119010973 putative active site [active] 138119010974 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 138119010975 Walker A motif; other site 138119010976 ATP binding site [chemical binding]; other site 138119010977 Walker B motif; other site 138119010978 arginine finger; other site 138119010979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119010980 putative hydrolase; Provisional; Region: PRK02113 138119010981 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 138119010982 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 138119010983 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119010984 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119010985 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 138119010986 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119010987 Cysteine-rich domain; Region: CCG; pfam02754 138119010988 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119010989 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 138119010990 Cysteine-rich domain; Region: CCG; pfam02754 138119010991 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119010992 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119010993 transmembrane helices; other site 138119010994 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 138119010995 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 138119010996 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 138119010997 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119010998 molybdopterin cofactor binding site; other site 138119010999 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119011000 molybdopterin cofactor binding site; other site 138119011001 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119011002 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119011003 transmembrane helices; other site 138119011004 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119011005 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119011006 putative active site [active] 138119011007 heme pocket [chemical binding]; other site 138119011008 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119011009 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 138119011010 Walker A motif; other site 138119011011 ATP binding site [chemical binding]; other site 138119011012 Walker B motif; other site 138119011013 arginine finger; other site 138119011014 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119011015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011016 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 138119011017 active site 138119011018 phosphorylation site [posttranslational modification] 138119011019 intermolecular recognition site; other site 138119011020 dimerization interface [polypeptide binding]; other site 138119011021 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 138119011022 DNA binding site [nucleotide binding] 138119011023 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119011024 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119011025 dimerization interface [polypeptide binding]; other site 138119011026 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 138119011027 dimer interface [polypeptide binding]; other site 138119011028 phosphorylation site [posttranslational modification] 138119011029 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 138119011030 ATP binding site [chemical binding]; other site 138119011031 Mg2+ binding site [ion binding]; other site 138119011032 G-X-G motif; other site 138119011033 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119011034 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011035 Walker A/P-loop; other site 138119011036 ATP binding site [chemical binding]; other site 138119011037 Q-loop/lid; other site 138119011038 ABC transporter signature motif; other site 138119011039 Walker B; other site 138119011040 D-loop; other site 138119011041 H-loop/switch region; other site 138119011042 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138119011043 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119011044 Walker A/P-loop; other site 138119011045 ATP binding site [chemical binding]; other site 138119011046 Q-loop/lid; other site 138119011047 ABC transporter signature motif; other site 138119011048 Walker B; other site 138119011049 D-loop; other site 138119011050 H-loop/switch region; other site 138119011051 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 138119011052 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119011053 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 138119011054 dimer interface [polypeptide binding]; other site 138119011055 conserved gate region; other site 138119011056 putative PBP binding loops; other site 138119011057 ABC-ATPase subunit interface; other site 138119011058 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119011059 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 138119011060 dimer interface [polypeptide binding]; other site 138119011061 conserved gate region; other site 138119011062 putative PBP binding loops; other site 138119011063 ABC-ATPase subunit interface; other site 138119011064 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119011065 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 138119011066 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 138119011067 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 138119011068 ligand binding site [chemical binding]; other site 138119011069 flexible hinge region; other site 138119011070 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 138119011071 putative switch regulator; other site 138119011072 non-specific DNA interactions [nucleotide binding]; other site 138119011073 DNA binding site [nucleotide binding] 138119011074 sequence specific DNA binding site [nucleotide binding]; other site 138119011075 putative cAMP binding site [chemical binding]; other site 138119011076 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119011077 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 138119011078 active site 138119011079 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119011080 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119011081 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 138119011082 active site 138119011083 benzoate transport; Region: 2A0115; TIGR00895 138119011084 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 138119011085 putative substrate translocation pore; other site 138119011086 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 138119011087 putative substrate translocation pore; other site 138119011088 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 138119011089 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 138119011090 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 138119011091 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119011092 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 138119011093 ligand binding site [chemical binding]; other site 138119011094 flexible hinge region; other site 138119011095 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 138119011096 putative switch regulator; other site 138119011097 non-specific DNA interactions [nucleotide binding]; other site 138119011098 DNA binding site [nucleotide binding] 138119011099 sequence specific DNA binding site [nucleotide binding]; other site 138119011100 putative cAMP binding site [chemical binding]; other site 138119011101 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119011102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119011103 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119011104 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119011105 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 138119011106 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119011107 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119011108 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119011109 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 138119011110 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 138119011111 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 138119011112 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119011113 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 138119011114 FMN binding site [chemical binding]; other site 138119011115 dimer interface [polypeptide binding]; other site 138119011116 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 138119011117 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 138119011118 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 138119011119 dimer interface [polypeptide binding]; other site 138119011120 phosphorylation site [posttranslational modification] 138119011121 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 138119011122 ATP binding site [chemical binding]; other site 138119011123 Mg2+ binding site [ion binding]; other site 138119011124 G-X-G motif; other site 138119011125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011126 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 138119011127 active site 138119011128 phosphorylation site [posttranslational modification] 138119011129 intermolecular recognition site; other site 138119011130 dimerization interface [polypeptide binding]; other site 138119011131 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 138119011132 DNA binding site [nucleotide binding] 138119011133 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 138119011134 Asp-box motif; other site 138119011135 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 138119011136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119011137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119011138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119011139 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 138119011140 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 138119011141 siderophore binding site; other site 138119011142 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119011143 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 138119011144 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119011145 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119011146 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119011147 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119011148 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119011149 Walker A/P-loop; other site 138119011150 ATP binding site [chemical binding]; other site 138119011151 Q-loop/lid; other site 138119011152 ABC transporter signature motif; other site 138119011153 Walker B; other site 138119011154 D-loop; other site 138119011155 H-loop/switch region; other site 138119011156 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119011157 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 138119011158 ABC-ATPase subunit interface; other site 138119011159 dimer interface [polypeptide binding]; other site 138119011160 putative PBP binding regions; other site 138119011161 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119011162 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 138119011163 ABC-ATPase subunit interface; other site 138119011164 dimer interface [polypeptide binding]; other site 138119011165 putative PBP binding regions; other site 138119011166 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119011167 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119011168 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 138119011169 Walker A/P-loop; other site 138119011170 ATP binding site [chemical binding]; other site 138119011171 Q-loop/lid; other site 138119011172 ABC transporter signature motif; other site 138119011173 Walker B; other site 138119011174 D-loop; other site 138119011175 H-loop/switch region; other site 138119011176 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119011177 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 138119011178 siderophore binding site; other site 138119011179 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 138119011180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119011181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119011182 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 138119011183 active site 138119011184 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 138119011185 L-lactate permease; Region: Lactate_perm; cl00701 138119011186 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 138119011187 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119011188 Predicted amidohydrolase [General function prediction only]; Region: COG0388 138119011189 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 138119011190 active site 138119011191 catalytic triad [active] 138119011192 dimer interface [polypeptide binding]; other site 138119011193 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 138119011194 Predicted amidohydrolase [General function prediction only]; Region: COG0388 138119011195 active site 138119011196 catalytic triad [active] 138119011197 dimer interface [polypeptide binding]; other site 138119011198 malate dehydrogenase; Reviewed; Region: PRK06223 138119011199 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 138119011200 NAD(P) binding site [chemical binding]; other site 138119011201 dimer interface [polypeptide binding]; other site 138119011202 tetramer (dimer of dimers) interface [polypeptide binding]; other site 138119011203 substrate binding site [chemical binding]; other site 138119011204 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 138119011205 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 138119011206 Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the...; Region: Cyclic_amidohydrolases; cd01302 138119011207 active site 138119011208 tetramer interface [polypeptide binding]; other site 138119011209 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119011210 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119011211 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 138119011212 active site 138119011213 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 138119011214 tartrate dehydrogenase; Provisional; Region: PRK08194 138119011215 DctM-like transporters; Region: DctM; pfam06808 138119011216 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 138119011217 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 138119011218 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119011219 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 138119011220 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 138119011221 GIY-YIG motif/motif A; other site 138119011222 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 138119011223 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 138119011224 metal ion-dependent adhesion site (MIDAS); other site 138119011225 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119011226 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 138119011227 non-specific DNA binding site [nucleotide binding]; other site 138119011228 salt bridge; other site 138119011229 sequence-specific DNA binding site [nucleotide binding]; other site 138119011230 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 138119011231 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cd00524 138119011232 non-heme iron binding site [ion binding]; other site 138119011233 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 138119011234 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 138119011235 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 138119011236 Methyltransferase domain; Region: Methyltransf_23; pfam13489 138119011237 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 138119011238 S-adenosylmethionine binding site [chemical binding]; other site 138119011239 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 138119011240 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 138119011241 S-adenosylmethionine binding site [chemical binding]; other site 138119011242 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 138119011243 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 138119011244 FeS/SAM binding site; other site 138119011245 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 138119011246 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119011247 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 138119011248 This conserved region includes the FMN-binding site of the NqrC protein as well as the NosR and NirI regulatory proteins; Region: FMN_bind; smart00900 138119011249 hypothetical protein; Validated; Region: PRK07121 138119011250 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119011251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119011252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119011253 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119011254 dimerization interface [polypeptide binding]; other site 138119011255 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 138119011256 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 138119011257 Protein of unknown function (DUF3832); Region: DUF3832; pfam12909 138119011258 VanW like protein; Region: VanW; pfam04294 138119011259 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 138119011260 Phosphotransferase enzyme family; Region: APH; pfam01636 138119011261 active site 138119011262 ATP binding site [chemical binding]; other site 138119011263 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119011264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119011265 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 138119011266 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119011267 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119011268 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119011269 Walker A/P-loop; other site 138119011270 ATP binding site [chemical binding]; other site 138119011271 Q-loop/lid; other site 138119011272 ABC transporter signature motif; other site 138119011273 Walker B; other site 138119011274 D-loop; other site 138119011275 H-loop/switch region; other site 138119011276 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119011277 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 138119011278 Walker A/P-loop; other site 138119011279 ATP binding site [chemical binding]; other site 138119011280 Q-loop/lid; other site 138119011281 ABC transporter signature motif; other site 138119011282 Walker B; other site 138119011283 D-loop; other site 138119011284 H-loop/switch region; other site 138119011285 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 138119011286 DHHW protein; Region: DHHW; pfam14286 138119011287 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 138119011288 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 138119011289 active site 138119011290 catalytic triad [active] 138119011291 oxyanion hole [active] 138119011292 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119011293 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119011294 FtsX-like permease family; Region: FtsX; pfam02687 138119011295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011296 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119011297 Walker A/P-loop; other site 138119011298 ATP binding site [chemical binding]; other site 138119011299 Q-loop/lid; other site 138119011300 ABC transporter signature motif; other site 138119011301 Walker B; other site 138119011302 D-loop; other site 138119011303 H-loop/switch region; other site 138119011304 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 138119011305 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119011306 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 138119011307 Ligand Binding Site [chemical binding]; other site 138119011308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 138119011309 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119011310 dimerization interface [polypeptide binding]; other site 138119011311 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119011312 putative active site [active] 138119011313 heme pocket [chemical binding]; other site 138119011314 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 138119011315 dimer interface [polypeptide binding]; other site 138119011316 phosphorylation site [posttranslational modification] 138119011317 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 138119011318 ATP binding site [chemical binding]; other site 138119011319 Mg2+ binding site [ion binding]; other site 138119011320 G-X-G motif; other site 138119011321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011322 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 138119011323 active site 138119011324 phosphorylation site [posttranslational modification] 138119011325 intermolecular recognition site; other site 138119011326 dimerization interface [polypeptide binding]; other site 138119011327 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 138119011328 DNA binding site [nucleotide binding] 138119011329 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 138119011330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119011331 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119011332 dimerization interface [polypeptide binding]; other site 138119011333 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 138119011334 dimer interface [polypeptide binding]; other site 138119011335 phosphorylation site [posttranslational modification] 138119011336 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 138119011337 ATP binding site [chemical binding]; other site 138119011338 Mg2+ binding site [ion binding]; other site 138119011339 G-X-G motif; other site 138119011340 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011341 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 138119011342 active site 138119011343 phosphorylation site [posttranslational modification] 138119011344 intermolecular recognition site; other site 138119011345 dimerization interface [polypeptide binding]; other site 138119011346 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 138119011347 DNA binding site [nucleotide binding] 138119011348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119011349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119011350 metal binding site [ion binding]; metal-binding site 138119011351 active site 138119011352 I-site; other site 138119011353 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 138119011354 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119011355 PAS domain; Region: PAS_9; pfam13426 138119011356 putative active site [active] 138119011357 heme pocket [chemical binding]; other site 138119011358 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119011359 MarR family; Region: MarR_2; pfam12802 138119011360 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119011361 YCII-related domain; Region: YCII; pfam03795 138119011362 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119011363 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 138119011364 ABC-2 type transporter; Region: ABC2_membrane; cl17235 138119011365 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119011366 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119011367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119011368 Walker A/P-loop; other site 138119011369 ATP binding site [chemical binding]; other site 138119011370 Q-loop/lid; other site 138119011371 ABC transporter signature motif; other site 138119011372 Walker B; other site 138119011373 D-loop; other site 138119011374 H-loop/switch region; other site 138119011375 HAMP domain; Region: HAMP; pfam00672 138119011376 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 138119011377 dimer interface [polypeptide binding]; other site 138119011378 phosphorylation site [posttranslational modification] 138119011379 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 138119011380 ATP binding site [chemical binding]; other site 138119011381 Mg2+ binding site [ion binding]; other site 138119011382 G-X-G motif; other site 138119011383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011384 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 138119011385 active site 138119011386 phosphorylation site [posttranslational modification] 138119011387 intermolecular recognition site; other site 138119011388 dimerization interface [polypeptide binding]; other site 138119011389 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 138119011390 DNA binding site [nucleotide binding] 138119011391 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 138119011392 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 138119011393 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119011394 putative active site [active] 138119011395 BCCT family transporter; Region: BCCT; pfam02028 138119011396 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 138119011397 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 138119011398 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 138119011399 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 138119011400 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119011401 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119011402 substrate binding pocket [chemical binding]; other site 138119011403 dimer interface [polypeptide binding]; other site 138119011404 inhibitor binding site; inhibition site 138119011405 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119011406 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 138119011407 B12 binding site [chemical binding]; other site 138119011408 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 138119011409 PAS fold; Region: PAS_4; pfam08448 138119011410 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119011411 putative active site [active] 138119011412 heme pocket [chemical binding]; other site 138119011413 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119011414 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 138119011415 Walker A motif; other site 138119011416 ATP binding site [chemical binding]; other site 138119011417 Walker B motif; other site 138119011418 arginine finger; other site 138119011419 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119011420 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 138119011421 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 138119011422 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 138119011423 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 138119011424 ligand binding site [chemical binding]; other site 138119011425 flexible hinge region; other site 138119011426 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 138119011427 putative switch regulator; other site 138119011428 non-specific DNA interactions [nucleotide binding]; other site 138119011429 DNA binding site [nucleotide binding] 138119011430 sequence specific DNA binding site [nucleotide binding]; other site 138119011431 putative cAMP binding site [chemical binding]; other site 138119011432 tyrosine phenol-lyase; Provisional; Region: PRK13237 138119011433 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 138119011434 substrate binding site [chemical binding]; other site 138119011435 tetramer interface [polypeptide binding]; other site 138119011436 catalytic residue [active] 138119011437 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119011438 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119011439 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119011440 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119011441 FtsX-like permease family; Region: FtsX; pfam02687 138119011442 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011443 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119011444 Walker A/P-loop; other site 138119011445 ATP binding site [chemical binding]; other site 138119011446 Q-loop/lid; other site 138119011447 ABC transporter signature motif; other site 138119011448 Walker B; other site 138119011449 D-loop; other site 138119011450 H-loop/switch region; other site 138119011451 HlyD family secretion protein; Region: HlyD; pfam00529 138119011452 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119011453 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119011454 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119011455 AAA domain; Region: AAA_21; pfam13304 138119011456 Walker A/P-loop; other site 138119011457 ATP binding site [chemical binding]; other site 138119011458 Q-loop/lid; other site 138119011459 ABC transporter signature motif; other site 138119011460 Walker B; other site 138119011461 D-loop; other site 138119011462 YibE/F-like protein; Region: YibE_F; pfam07907 138119011463 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119011464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119011465 metal binding site [ion binding]; metal-binding site 138119011466 active site 138119011467 I-site; other site 138119011468 TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI)...; Region: TOPRIM_TopoIIB_SPO; cd00223 138119011469 active site 138119011470 metal binding site [ion binding]; metal-binding site 138119011471 interdomain interaction site; other site 138119011472 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 138119011473 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119011474 FMN-binding domain; Region: FMN_bind; pfam04205 138119011475 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 138119011476 non-specific DNA binding site [nucleotide binding]; other site 138119011477 salt bridge; other site 138119011478 sequence-specific DNA binding site [nucleotide binding]; other site 138119011479 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 138119011480 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 138119011481 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 138119011482 active site 138119011483 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 138119011484 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 138119011485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119011486 Coenzyme A binding pocket [chemical binding]; other site 138119011487 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 138119011488 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 138119011489 putative dimer interface [polypeptide binding]; other site 138119011490 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 138119011491 FtsX-like permease family; Region: FtsX; pfam02687 138119011492 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011493 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119011494 Walker A/P-loop; other site 138119011495 ATP binding site [chemical binding]; other site 138119011496 Q-loop/lid; other site 138119011497 ABC transporter signature motif; other site 138119011498 Walker B; other site 138119011499 D-loop; other site 138119011500 H-loop/switch region; other site 138119011501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119011502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119011503 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 138119011504 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119011505 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119011506 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119011507 Walker A/P-loop; other site 138119011508 ATP binding site [chemical binding]; other site 138119011509 Q-loop/lid; other site 138119011510 ABC transporter signature motif; other site 138119011511 Walker B; other site 138119011512 D-loop; other site 138119011513 H-loop/switch region; other site 138119011514 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 138119011515 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 138119011516 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119011517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119011518 Coenzyme A binding pocket [chemical binding]; other site 138119011519 FtsX-like permease family; Region: FtsX; pfam02687 138119011520 FtsX-like permease family; Region: FtsX; pfam02687 138119011521 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119011522 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011523 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119011524 Walker A/P-loop; other site 138119011525 ATP binding site [chemical binding]; other site 138119011526 Q-loop/lid; other site 138119011527 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119011528 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 138119011529 ATP binding site [chemical binding]; other site 138119011530 Mg2+ binding site [ion binding]; other site 138119011531 G-X-G motif; other site 138119011532 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011533 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 138119011534 active site 138119011535 phosphorylation site [posttranslational modification] 138119011536 intermolecular recognition site; other site 138119011537 dimerization interface [polypeptide binding]; other site 138119011538 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 138119011539 DNA binding site [nucleotide binding] 138119011540 Uncharacterized conserved protein [Function unknown]; Region: COG0398 138119011541 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 138119011542 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 138119011543 Walker B motif; other site 138119011544 arginine finger; other site 138119011545 Low molecular weight phosphatase family; Region: LMWPc; cl00105 138119011546 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 138119011547 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119011548 Transcriptional regulator PadR-like family; Region: PadR; cl17335 138119011549 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 138119011550 VanZ like family; Region: VanZ; pfam04892 138119011551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119011552 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 138119011553 dimer interface [polypeptide binding]; other site 138119011554 phosphorylation site [posttranslational modification] 138119011555 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 138119011556 ATP binding site [chemical binding]; other site 138119011557 Mg2+ binding site [ion binding]; other site 138119011558 G-X-G motif; other site 138119011559 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011560 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 138119011561 active site 138119011562 phosphorylation site [posttranslational modification] 138119011563 intermolecular recognition site; other site 138119011564 dimerization interface [polypeptide binding]; other site 138119011565 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 138119011566 DNA binding site [nucleotide binding] 138119011567 D-alanine--D-lactate ligase; Provisional; Region: vanB; PRK14568 138119011568 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 138119011569 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 138119011570 VanW like protein; Region: VanW; pfam04294 138119011571 FemAB family; Region: FemAB; pfam02388 138119011572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 138119011573 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 138119011574 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 138119011575 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119011576 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 138119011577 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 138119011578 EamA-like transporter family; Region: EamA; pfam00892 138119011579 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119011580 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119011581 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119011582 active site 138119011583 FMN binding site [chemical binding]; other site 138119011584 substrate binding site [chemical binding]; other site 138119011585 putative catalytic residue [active] 138119011586 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119011587 FMN-binding domain; Region: FMN_bind; pfam04205 138119011588 FMN-binding domain; Region: FMN_bind; pfam04205 138119011589 FAD binding domain; Region: FAD_binding_2; pfam00890 138119011590 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119011591 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 138119011592 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119011593 DNA binding residues [nucleotide binding] 138119011594 dimer interface [polypeptide binding]; other site 138119011595 Acyltransferase family; Region: Acyl_transf_3; pfam01757 138119011596 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 138119011597 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 138119011598 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 138119011599 ABC-2 type transporter; Region: ABC2_membrane; cl17235 138119011600 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 138119011601 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 138119011602 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119011603 putative substrate translocation pore; other site 138119011604 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 138119011605 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 138119011606 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119011607 MarR family; Region: MarR_2; pfam12802 138119011608 MarR family; Region: MarR_2; cl17246 138119011609 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 138119011610 active site 138119011611 DNA binding site [nucleotide binding] 138119011612 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 138119011613 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 138119011614 S-adenosylmethionine binding site [chemical binding]; other site 138119011615 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 138119011616 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 138119011617 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 138119011618 hydroperoxidase II; Provisional; Region: katE; PRK11249 138119011619 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 138119011620 tetramer interface [polypeptide binding]; other site 138119011621 heme binding pocket [chemical binding]; other site 138119011622 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 138119011623 domain interactions; other site 138119011624 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 138119011625 dinuclear metal binding motif [ion binding]; other site 138119011626 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 138119011627 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 138119011628 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 138119011629 MarR family; Region: MarR_2; pfam12802 138119011630 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 138119011631 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 138119011632 AP (apurinic/apyrimidinic) site pocket; other site 138119011633 DNA interaction; other site 138119011634 Metal-binding active site; metal-binding site 138119011635 FMN-binding domain; Region: FMN_bind; pfam04205 138119011636 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 138119011637 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119011638 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 138119011639 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 138119011640 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119011641 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119011642 4Fe-4S binding domain; Region: Fer4; cl02805 138119011643 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 138119011644 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119011645 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119011646 putative [4Fe-4S] binding site [ion binding]; other site 138119011647 putative molybdopterin cofactor binding site [chemical binding]; other site 138119011648 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119011649 molybdopterin cofactor binding site; other site 138119011650 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119011651 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119011652 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 138119011653 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119011654 4Fe-4S binding domain; Region: Fer4; pfam00037 138119011655 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119011656 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 138119011657 putative [4Fe-4S] binding site [ion binding]; other site 138119011658 putative molybdopterin cofactor binding site [chemical binding]; other site 138119011659 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119011660 putative molybdopterin cofactor binding site; other site 138119011661 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119011662 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119011663 putative [4Fe-4S] binding site [ion binding]; other site 138119011664 putative molybdopterin cofactor binding site [chemical binding]; other site 138119011665 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119011666 molybdopterin cofactor binding site; other site 138119011667 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119011668 4Fe-4S binding domain; Region: Fer4; pfam00037 138119011669 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119011670 hypothetical protein; Validated; Region: PRK07121 138119011671 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119011672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119011673 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119011674 phosphoenolpyruvate synthase; Validated; Region: PRK06241 138119011675 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119011676 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 138119011677 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119011678 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 138119011679 non-specific DNA binding site [nucleotide binding]; other site 138119011680 salt bridge; other site 138119011681 sequence-specific DNA binding site [nucleotide binding]; other site 138119011682 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 138119011683 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 138119011684 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 138119011685 Fe-S cluster binding site [ion binding]; other site 138119011686 active site 138119011687 Intermediate filament protein; Region: Filament; pfam00038 138119011688 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119011689 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 138119011690 dimerization interface [polypeptide binding]; other site 138119011691 putative DNA binding site [nucleotide binding]; other site 138119011692 putative Zn2+ binding site [ion binding]; other site 138119011693 EamA-like transporter family; Region: EamA; pfam00892 138119011694 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 138119011695 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 138119011696 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 138119011697 active site 138119011698 phosphorylation site [posttranslational modification] 138119011699 intermolecular recognition site; other site 138119011700 dimerization interface [polypeptide binding]; other site 138119011701 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 138119011702 PAS domain; Region: PAS_9; pfam13426 138119011703 PAS domain; Region: PAS_9; pfam13426 138119011704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119011705 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 138119011706 dimer interface [polypeptide binding]; other site 138119011707 phosphorylation site [posttranslational modification] 138119011708 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 138119011709 ATP binding site [chemical binding]; other site 138119011710 Mg2+ binding site [ion binding]; other site 138119011711 G-X-G motif; other site 138119011712 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119011713 putative active site [active] 138119011714 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119011715 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119011716 Zn2+ binding site [ion binding]; other site 138119011717 Mg2+ binding site [ion binding]; other site 138119011718 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 138119011719 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119011720 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119011721 dimerization interface [polypeptide binding]; other site 138119011722 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119011723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119011724 dimer interface [polypeptide binding]; other site 138119011725 putative CheW interface [polypeptide binding]; other site 138119011726 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119011727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119011728 DNA-binding site [nucleotide binding]; DNA binding site 138119011729 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 138119011730 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119011731 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 138119011732 B12 binding site [chemical binding]; other site 138119011733 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 138119011734 B12 binding domain; Region: B12-binding_2; smart01018 138119011735 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119011736 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 138119011737 B12 binding site [chemical binding]; other site 138119011738 Putative zinc-finger; Region: zf-HC2; pfam13490 138119011739 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 138119011740 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119011741 putative substrate translocation pore; other site 138119011742 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119011743 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 138119011744 ligand binding site [chemical binding]; other site 138119011745 flexible hinge region; other site 138119011746 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 138119011747 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119011748 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119011749 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119011750 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 138119011751 putative [4Fe-4S] binding site [ion binding]; other site 138119011752 putative molybdopterin cofactor binding site [chemical binding]; other site 138119011753 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 138119011754 putative molybdopterin cofactor binding site; other site 138119011755 Domain of unknown function (DUF303); Region: DUF303; pfam03629 138119011756 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 138119011757 DEAD-like helicases superfamily; Region: DEXDc; smart00487 138119011758 ATP binding site [chemical binding]; other site 138119011759 Mg++ binding site [ion binding]; other site 138119011760 motif III; other site 138119011761 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 138119011762 nucleotide binding region [chemical binding]; other site 138119011763 ATP-binding site [chemical binding]; other site 138119011764 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 138119011765 dimer interface [polypeptide binding]; other site 138119011766 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 138119011767 dimer interface [polypeptide binding]; other site 138119011768 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 138119011769 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 138119011770 S-adenosylmethionine binding site [chemical binding]; other site 138119011771 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119011772 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 138119011773 active site 138119011774 phosphorylation site [posttranslational modification] 138119011775 intermolecular recognition site; other site 138119011776 dimerization interface [polypeptide binding]; other site 138119011777 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 138119011778 DNA binding site [nucleotide binding] 138119011779 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 138119011780 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 138119011781 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 138119011782 ATP binding site [chemical binding]; other site 138119011783 Mg2+ binding site [ion binding]; other site 138119011784 G-X-G motif; other site 138119011785 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 138119011786 TrkA-N domain; Region: TrkA_N; pfam02254 138119011787 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 138119011788 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 138119011789 TRAM domain; Region: TRAM; pfam01938 138119011790 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 138119011791 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 138119011792 S-adenosylmethionine binding site [chemical binding]; other site 138119011793 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 138119011794 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 138119011795 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 138119011796 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 138119011797 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 138119011798 Protein of unknown function (DUF523); Region: DUF523; pfam04463 138119011799 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 138119011800 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 138119011801 putative substrate translocation pore; other site 138119011802 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119011803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119011804 DNA-binding site [nucleotide binding]; DNA binding site 138119011805 FCD domain; Region: FCD; pfam07729 138119011806 LrgB-like family; Region: LrgB; pfam04172 138119011807 LrgA family; Region: LrgA; cl00608 138119011808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119011809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119011810 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 138119011811 putative dimerization interface [polypeptide binding]; other site 138119011812 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 138119011813 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 138119011814 ATP binding site [chemical binding]; other site 138119011815 putative Mg++ binding site [ion binding]; other site 138119011816 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 138119011817 nucleotide binding region [chemical binding]; other site 138119011818 ATP-binding site [chemical binding]; other site 138119011819 DEAD/H associated; Region: DEAD_assoc; pfam08494 138119011820 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119011821 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 138119011822 non-specific DNA binding site [nucleotide binding]; other site 138119011823 salt bridge; other site 138119011824 sequence-specific DNA binding site [nucleotide binding]; other site 138119011825 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 138119011826 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 138119011827 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 138119011828 active site 138119011829 Uncharacterized conserved protein [Function unknown]; Region: COG1359 138119011830 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 138119011831 classical (c) SDRs; Region: SDR_c; cd05233 138119011832 NAD(P) binding site [chemical binding]; other site 138119011833 active site 138119011834 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 138119011835 Ligand Binding Site [chemical binding]; other site 138119011836 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119011837 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 138119011838 putative oxidoreductase FixC; Provisional; Region: PRK10157 138119011839 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119011840 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 138119011841 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119011842 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 138119011843 classical (c) SDRs; Region: SDR_c; cd05233 138119011844 NAD(P) binding site [chemical binding]; other site 138119011845 active site 138119011846 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119011847 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119011848 active site 138119011849 FMN binding site [chemical binding]; other site 138119011850 substrate binding site [chemical binding]; other site 138119011851 putative catalytic residue [active] 138119011852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119011853 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 138119011854 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 138119011855 putative substrate translocation pore; other site 138119011856 AMP-binding domain protein; Validated; Region: PRK08315 138119011857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119011858 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 138119011859 acyl-activating enzyme (AAE) consensus motif; other site 138119011860 putative AMP binding site [chemical binding]; other site 138119011861 putative active site [active] 138119011862 putative CoA binding site [chemical binding]; other site 138119011863 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 138119011864 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 138119011865 Walker A motif; other site 138119011866 ATP binding site [chemical binding]; other site 138119011867 Walker B motif; other site 138119011868 arginine finger; other site 138119011869 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119011870 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119011871 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119011872 active site 138119011873 FMN binding site [chemical binding]; other site 138119011874 substrate binding site [chemical binding]; other site 138119011875 putative catalytic residue [active] 138119011876 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119011877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119011878 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 138119011879 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119011880 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 138119011881 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 138119011882 oxidoreductase; Provisional; Region: PRK10015 138119011883 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 138119011884 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 138119011885 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119011886 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 138119011887 Ligand binding site [chemical binding]; other site 138119011888 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119011889 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 138119011890 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119011891 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 138119011892 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 138119011893 active site 138119011894 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 138119011895 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119011896 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119011897 hypothetical protein; Validated; Region: PRK07121 138119011898 Predicted oxidoreductase [General function prediction only]; Region: COG3573 138119011899 FMN-binding domain; Region: FMN_bind; cl01081 138119011900 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 138119011901 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 138119011902 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; cl17355 138119011903 Bacterial transcriptional activator domain; Region: BTAD; smart01043 138119011904 Predicted ATPase [General function prediction only]; Region: COG3899 138119011905 AAA ATPase domain; Region: AAA_16; pfam13191 138119011906 Tetratricopeptide repeat; Region: TPR_12; pfam13424 138119011907 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 138119011908 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 138119011909 synthetase active site [active] 138119011910 NTP binding site [chemical binding]; other site 138119011911 metal binding site [ion binding]; metal-binding site 138119011912 seryl-tRNA synthetase; Provisional; Region: PRK05431 138119011913 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119011914 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119011915 Walker A/P-loop; other site 138119011916 ATP binding site [chemical binding]; other site 138119011917 Q-loop/lid; other site 138119011918 ABC transporter signature motif; other site 138119011919 Walker B; other site 138119011920 D-loop; other site 138119011921 H-loop/switch region; other site 138119011922 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119011923 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119011924 Walker A/P-loop; other site 138119011925 ATP binding site [chemical binding]; other site 138119011926 Q-loop/lid; other site 138119011927 ABC transporter signature motif; other site 138119011928 Walker B; other site 138119011929 D-loop; other site 138119011930 H-loop/switch region; other site 138119011931 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119011932 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119011933 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 138119011934 Walker A/P-loop; other site 138119011935 ATP binding site [chemical binding]; other site 138119011936 Q-loop/lid; other site 138119011937 ABC transporter signature motif; other site 138119011938 Walker B; other site 138119011939 D-loop; other site 138119011940 H-loop/switch region; other site 138119011941 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119011942 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119011943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119011944 Walker A/P-loop; other site 138119011945 ATP binding site [chemical binding]; other site 138119011946 Q-loop/lid; other site 138119011947 ABC transporter signature motif; other site 138119011948 Walker B; other site 138119011949 D-loop; other site 138119011950 H-loop/switch region; other site 138119011951 Transcriptional regulators [Transcription]; Region: MarR; COG1846 138119011952 MarR family; Region: MarR_2; cl17246 138119011953 CAAX protease self-immunity; Region: Abi; pfam02517 138119011954 PAS domain; Region: PAS; smart00091 138119011955 PAS domain; Region: PAS_9; pfam13426 138119011956 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 138119011957 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 138119011958 active site 138119011959 phosphorylation site [posttranslational modification] 138119011960 intermolecular recognition site; other site 138119011961 dimerization interface [polypeptide binding]; other site 138119011962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119011963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119011964 metal binding site [ion binding]; metal-binding site 138119011965 active site 138119011966 I-site; other site 138119011967 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 138119011968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119011969 Walker A/P-loop; other site 138119011970 ATP binding site [chemical binding]; other site 138119011971 Q-loop/lid; other site 138119011972 ABC transporter signature motif; other site 138119011973 Walker B; other site 138119011974 D-loop; other site 138119011975 H-loop/switch region; other site 138119011976 ABC transporter; Region: ABC_tran_2; pfam12848 138119011977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119011978 Protein of unknown function (DUF454); Region: DUF454; cl01063 138119011979 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 138119011980 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 138119011981 dimer interface [polypeptide binding]; other site 138119011982 active site 138119011983 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 138119011984 catalytic residues [active] 138119011985 substrate binding site [chemical binding]; other site 138119011986 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 138119011987 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 138119011988 NAD(P) binding pocket [chemical binding]; other site 138119011989 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 138119011990 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 138119011991 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119011992 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119011993 FtsX-like permease family; Region: FtsX; pfam02687 138119011994 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119011995 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119011996 Walker A/P-loop; other site 138119011997 ATP binding site [chemical binding]; other site 138119011998 Q-loop/lid; other site 138119011999 ABC transporter signature motif; other site 138119012000 Walker B; other site 138119012001 D-loop; other site 138119012002 H-loop/switch region; other site 138119012003 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119012004 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119012005 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 138119012006 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 138119012007 active site 138119012008 trimer interface [polypeptide binding]; other site 138119012009 allosteric site; other site 138119012010 active site lid [active] 138119012011 hexamer (dimer of trimers) interface [polypeptide binding]; other site 138119012012 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 138119012013 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 138119012014 active site 138119012015 HIGH motif; other site 138119012016 dimer interface [polypeptide binding]; other site 138119012017 KMSKS motif; other site 138119012018 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 138119012019 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119012020 FeS/SAM binding site; other site 138119012021 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 138119012022 Periplasmic binding protein TroA_e. 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_e; cd01142 138119012023 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119012024 putative ligand binding residues [chemical binding]; other site 138119012025 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119012026 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119012027 Walker A/P-loop; other site 138119012028 ATP binding site [chemical binding]; other site 138119012029 Q-loop/lid; other site 138119012030 ABC transporter signature motif; other site 138119012031 Walker B; other site 138119012032 D-loop; other site 138119012033 H-loop/switch region; other site 138119012034 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 138119012035 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 138119012036 ABC-ATPase subunit interface; other site 138119012037 dimer interface [polypeptide binding]; other site 138119012038 putative PBP binding regions; other site 138119012039 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 138119012040 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 138119012041 dimer interface [polypeptide binding]; other site 138119012042 putative functional site; other site 138119012043 putative MPT binding site; other site 138119012044 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119012045 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119012046 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119012047 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119012048 nitrogenase reductase-like protein; Reviewed; Region: PRK13231 138119012049 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 138119012050 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 138119012051 dimer interface [polypeptide binding]; other site 138119012052 putative functional site; other site 138119012053 putative MPT binding site; other site 138119012054 Protein of unknown function (Gmx_para_CXXCG); Region: Gmx_para_CXXCG; cl15282 138119012055 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 138119012056 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 138119012057 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 138119012058 putative active site [active] 138119012059 putative NTP binding site [chemical binding]; other site 138119012060 putative nucleic acid binding site [nucleotide binding]; other site 138119012061 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119012062 Type II intron maturase; Region: Intron_maturas2; pfam01348 138119012063 YcxB-like protein; Region: YcxB; pfam14317 138119012064 Pyocin large subunit [General function prediction only]; Region: COG5529 138119012065 Rubrerythrin [Energy production and conversion]; Region: COG1592 138119012066 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119012067 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119012068 Walker A/P-loop; other site 138119012069 ATP binding site [chemical binding]; other site 138119012070 Q-loop/lid; other site 138119012071 ABC transporter signature motif; other site 138119012072 Walker B; other site 138119012073 D-loop; other site 138119012074 H-loop/switch region; other site 138119012075 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119012076 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119012077 Walker A/P-loop; other site 138119012078 ATP binding site [chemical binding]; other site 138119012079 Q-loop/lid; other site 138119012080 ABC transporter signature motif; other site 138119012081 Walker B; other site 138119012082 D-loop; other site 138119012083 H-loop/switch region; other site 138119012084 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 138119012085 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 138119012086 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119012087 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; cd00688 138119012088 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 138119012089 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012090 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012091 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012092 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 138119012093 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 138119012094 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 138119012095 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 138119012096 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119012097 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 138119012098 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 138119012099 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 138119012100 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119012101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119012102 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 138119012103 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 138119012104 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119012105 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119012106 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119012107 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119012108 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 138119012109 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 138119012110 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 138119012111 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119012112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119012113 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 138119012114 active site 138119012115 phosphorylation site [posttranslational modification] 138119012116 intermolecular recognition site; other site 138119012117 dimerization interface [polypeptide binding]; other site 138119012118 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 138119012119 DNA binding site [nucleotide binding] 138119012120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119012121 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012122 dimerization interface [polypeptide binding]; other site 138119012123 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 138119012124 dimer interface [polypeptide binding]; other site 138119012125 phosphorylation site [posttranslational modification] 138119012126 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 138119012127 ATP binding site [chemical binding]; other site 138119012128 Mg2+ binding site [ion binding]; other site 138119012129 G-X-G motif; other site 138119012130 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 138119012131 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 138119012132 Walker A motif; other site 138119012133 ATP binding site [chemical binding]; other site 138119012134 Walker B motif; other site 138119012135 arginine finger; other site 138119012136 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 138119012137 metal ion-dependent adhesion site (MIDAS); other site 138119012138 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 138119012139 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 138119012140 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 138119012141 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 138119012142 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 138119012143 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 138119012144 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 138119012145 Walker A/P-loop; other site 138119012146 ATP binding site [chemical binding]; other site 138119012147 Q-loop/lid; other site 138119012148 ABC transporter signature motif; other site 138119012149 Walker B; other site 138119012150 D-loop; other site 138119012151 H-loop/switch region; other site 138119012152 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 138119012153 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 138119012154 ABC-ATPase subunit interface; other site 138119012155 dimer interface [polypeptide binding]; other site 138119012156 putative PBP binding regions; other site 138119012157 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 138119012158 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 138119012159 intersubunit interface [polypeptide binding]; other site 138119012160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119012161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119012162 dimerization interface [polypeptide binding]; other site 138119012163 LysR substrate binding domain; Region: LysR_substrate; pfam03466 138119012164 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 138119012165 substrate binding site [chemical binding]; other site 138119012166 THF binding site; other site 138119012167 zinc-binding site [ion binding]; other site 138119012168 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 138119012169 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 138119012170 homodimer interface [polypeptide binding]; other site 138119012171 Walker A motif; other site 138119012172 ATP binding site [chemical binding]; other site 138119012173 hydroxycobalamin binding site [chemical binding]; other site 138119012174 Walker B motif; other site 138119012175 putative transporter; Provisional; Region: PRK10484 138119012176 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 138119012177 Na binding site [ion binding]; other site 138119012178 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 138119012179 isocitrate dehydrogenase; Validated; Region: PRK08299 138119012180 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 138119012181 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 138119012182 active site 138119012183 catalytic residues [active] 138119012184 metal binding site [ion binding]; metal-binding site 138119012185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119012186 putative CheW interface [polypeptide binding]; other site 138119012187 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 138119012188 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 138119012189 GatB domain; Region: GatB_Yqey; smart00845 138119012190 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 138119012191 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 138119012192 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 138119012193 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 138119012194 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 138119012195 nucleotide binding pocket [chemical binding]; other site 138119012196 K-X-D-G motif; other site 138119012197 catalytic site [active] 138119012198 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 138119012199 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 138119012200 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 138119012201 Dimer interface [polypeptide binding]; other site 138119012202 BRCT sequence motif; other site 138119012203 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 138119012204 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119012205 DRTGG domain; Region: DRTGG; pfam07085 138119012206 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119012207 DHH family; Region: DHH; pfam01368 138119012208 DHHA2 domain; Region: DHHA2; pfam02833 138119012209 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 138119012210 Part of AAA domain; Region: AAA_19; pfam13245 138119012211 Family description; Region: UvrD_C_2; pfam13538 138119012212 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119012213 active site residue [active] 138119012214 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119012215 active site residue [active] 138119012216 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119012217 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 138119012218 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 138119012219 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119012220 4Fe-4S binding domain; Region: Fer4; cl02805 138119012221 thiosulfate reductase PhsA; Provisional; Region: PRK15488 138119012222 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 138119012223 putative [Fe4-S4] binding site [ion binding]; other site 138119012224 putative molybdopterin cofactor binding site [chemical binding]; other site 138119012225 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 138119012226 putative molybdopterin cofactor binding site; other site 138119012227 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119012228 active site residue [active] 138119012229 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119012230 active site residue [active] 138119012231 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119012232 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 138119012233 ligand binding site [chemical binding]; other site 138119012234 flexible hinge region; other site 138119012235 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 138119012236 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 138119012237 dimerization interface [polypeptide binding]; other site 138119012238 putative DNA binding site [nucleotide binding]; other site 138119012239 putative Zn2+ binding site [ion binding]; other site 138119012240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119012241 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119012242 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138119012243 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 138119012244 active site residue [active] 138119012245 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 138119012246 ApbE family; Region: ApbE; pfam02424 138119012247 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119012248 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 138119012249 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 138119012250 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 138119012251 ApbE family; Region: ApbE; pfam02424 138119012252 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 138119012253 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 138119012254 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 138119012255 metal binding site [ion binding]; metal-binding site 138119012256 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 138119012257 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 138119012258 substrate binding site [chemical binding]; other site 138119012259 glutamase interaction surface [polypeptide binding]; other site 138119012260 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 138119012261 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 138119012262 catalytic residues [active] 138119012263 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 138119012264 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 138119012265 putative active site [active] 138119012266 oxyanion strand; other site 138119012267 catalytic triad [active] 138119012268 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 138119012269 putative active site pocket [active] 138119012270 4-fold oligomerization interface [polypeptide binding]; other site 138119012271 metal binding residues [ion binding]; metal-binding site 138119012272 3-fold/trimer interface [polypeptide binding]; other site 138119012273 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 138119012274 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 138119012275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119012276 homodimer interface [polypeptide binding]; other site 138119012277 catalytic residue [active] 138119012278 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 138119012279 histidinol dehydrogenase; Region: hisD; TIGR00069 138119012280 NAD binding site [chemical binding]; other site 138119012281 dimerization interface [polypeptide binding]; other site 138119012282 product binding site; other site 138119012283 substrate binding site [chemical binding]; other site 138119012284 zinc binding site [ion binding]; other site 138119012285 catalytic residues [active] 138119012286 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 138119012287 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 138119012288 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 138119012289 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 138119012290 dimer interface [polypeptide binding]; other site 138119012291 motif 1; other site 138119012292 active site 138119012293 motif 2; other site 138119012294 motif 3; other site 138119012295 Trp repressor protein; Region: Trp_repressor; cl17266 138119012296 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 138119012297 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 138119012298 Walker A/P-loop; other site 138119012299 ATP binding site [chemical binding]; other site 138119012300 Q-loop/lid; other site 138119012301 ABC transporter signature motif; other site 138119012302 Walker B; other site 138119012303 D-loop; other site 138119012304 H-loop/switch region; other site 138119012305 NIL domain; Region: NIL; pfam09383 138119012306 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 138119012307 dimer interface [polypeptide binding]; other site 138119012308 conserved gate region; other site 138119012309 putative PBP binding loops; other site 138119012310 ABC-ATPase subunit interface; other site 138119012311 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 138119012312 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 138119012313 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 138119012314 benzoate transport; Region: 2A0115; TIGR00895 138119012315 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 138119012316 putative substrate translocation pore; other site 138119012317 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 138119012318 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 138119012319 dinuclear metal binding motif [ion binding]; other site 138119012320 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 138119012321 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 138119012322 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 138119012323 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 138119012324 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 138119012325 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 138119012326 purine monophosphate binding site [chemical binding]; other site 138119012327 dimer interface [polypeptide binding]; other site 138119012328 putative catalytic residues [active] 138119012329 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 138119012330 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 138119012331 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 138119012332 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 138119012333 active site 138119012334 substrate binding site [chemical binding]; other site 138119012335 cosubstrate binding site; other site 138119012336 catalytic site [active] 138119012337 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 138119012338 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 138119012339 dimerization interface [polypeptide binding]; other site 138119012340 putative ATP binding site [chemical binding]; other site 138119012341 amidophosphoribosyltransferase; Provisional; Region: PRK05793 138119012342 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 138119012343 active site 138119012344 tetramer interface [polypeptide binding]; other site 138119012345 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119012346 active site 138119012347 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 138119012348 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 138119012349 ATP binding site [chemical binding]; other site 138119012350 active site 138119012351 substrate binding site [chemical binding]; other site 138119012352 adenylosuccinate lyase; Provisional; Region: PRK07492 138119012353 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 138119012354 tetramer interface [polypeptide binding]; other site 138119012355 active site 138119012356 AIR carboxylase; Region: AIRC; pfam00731 138119012357 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 138119012358 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 138119012359 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 138119012360 dimerization interface [polypeptide binding]; other site 138119012361 ATP binding site [chemical binding]; other site 138119012362 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 138119012363 dimerization interface [polypeptide binding]; other site 138119012364 ATP binding site [chemical binding]; other site 138119012365 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 138119012366 putative active site [active] 138119012367 catalytic triad [active] 138119012368 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 138119012369 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119012370 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119012371 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119012372 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 138119012373 active site 138119012374 GMP synthase; Reviewed; Region: guaA; PRK00074 138119012375 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 138119012376 AMP/PPi binding site [chemical binding]; other site 138119012377 candidate oxyanion hole; other site 138119012378 catalytic triad [active] 138119012379 potential glutamine specificity residues [chemical binding]; other site 138119012380 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 138119012381 ATP Binding subdomain [chemical binding]; other site 138119012382 Ligand Binding sites [chemical binding]; other site 138119012383 Dimerization subdomain; other site 138119012384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119012385 active site 138119012386 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 138119012387 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 138119012388 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 138119012389 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 138119012390 Protein of unknown function (DUF2577); Region: DUF2577; pfam10844 138119012391 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 138119012392 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119012393 Phage XkdN-like protein; Region: XkdN; pfam08890 138119012394 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 138119012395 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 138119012396 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119012397 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 138119012398 non-specific DNA binding site [nucleotide binding]; other site 138119012399 salt bridge; other site 138119012400 sequence-specific DNA binding site [nucleotide binding]; other site 138119012401 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 138119012402 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 138119012403 ring oligomerisation interface [polypeptide binding]; other site 138119012404 ATP/Mg binding site [chemical binding]; other site 138119012405 stacking interactions; other site 138119012406 hinge regions; other site 138119012407 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 138119012408 oligomerisation interface [polypeptide binding]; other site 138119012409 mobile loop; other site 138119012410 roof hairpin; other site 138119012411 LabA_like proteins; Region: LabA_like; cd06167 138119012412 putative metal binding site [ion binding]; other site 138119012413 Uncharacterized conserved protein [Function unknown]; Region: COG1432 138119012414 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 138119012415 MPT binding site; other site 138119012416 trimer interface [polypeptide binding]; other site 138119012417 MOSC domain; Region: MOSC; pfam03473 138119012418 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 138119012419 trimer interface [polypeptide binding]; other site 138119012420 dimer interface [polypeptide binding]; other site 138119012421 putative active site [active] 138119012422 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 138119012423 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 138119012424 FeS/SAM binding site; other site 138119012425 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 138119012426 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 138119012427 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 138119012428 GTP binding site; other site 138119012429 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119012430 molybdopterin cofactor binding site; other site 138119012431 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 138119012432 molybdopterin cofactor binding site; other site 138119012433 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 138119012434 catalytic loop [active] 138119012435 iron binding site [ion binding]; other site 138119012436 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 138119012437 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 138119012438 4Fe-4S binding domain; Region: Fer4; pfam00037 138119012439 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119012440 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 138119012441 dimer interface [polypeptide binding]; other site 138119012442 [2Fe-2S] cluster binding site [ion binding]; other site 138119012443 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 138119012444 SLBB domain; Region: SLBB; pfam10531 138119012445 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 138119012446 4Fe-4S binding domain; Region: Fer4; pfam00037 138119012447 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119012448 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 138119012449 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 138119012450 putative dimer interface [polypeptide binding]; other site 138119012451 [2Fe-2S] cluster binding site [ion binding]; other site 138119012452 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 138119012453 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 138119012454 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 138119012455 UGMP family protein; Validated; Region: PRK09604 138119012456 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 138119012457 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 138119012458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119012459 Coenzyme A binding pocket [chemical binding]; other site 138119012460 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 138119012461 Glycoprotease family; Region: Peptidase_M22; pfam00814 138119012462 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 138119012463 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 138119012464 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 138119012465 active site 138119012466 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 138119012467 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 138119012468 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 138119012469 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 138119012470 RNA binding site [nucleotide binding]; other site 138119012471 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 138119012472 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 138119012473 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 138119012474 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 138119012475 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 138119012476 Ligand Binding Site [chemical binding]; other site 138119012477 cystathionine gamma-synthase; Reviewed; Region: PRK08247 138119012478 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 138119012479 homodimer interface [polypeptide binding]; other site 138119012480 substrate-cofactor binding pocket; other site 138119012481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119012482 catalytic residue [active] 138119012483 Predicted membrane protein [Function unknown]; Region: COG2364 138119012484 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 138119012485 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 138119012486 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119012487 putative substrate translocation pore; other site 138119012488 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119012489 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119012490 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 138119012491 putative acetyltransferase YhhY; Provisional; Region: PRK10140 138119012492 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 138119012493 Coenzyme A binding pocket [chemical binding]; other site 138119012494 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119012495 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012496 dimerization interface [polypeptide binding]; other site 138119012497 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119012498 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119012499 dimer interface [polypeptide binding]; other site 138119012500 putative CheW interface [polypeptide binding]; other site 138119012501 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119012502 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119012503 Transposase IS200 like; Region: Y1_Tnp; pfam01797 138119012504 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119012505 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 138119012506 FtsX-like permease family; Region: FtsX; pfam02687 138119012507 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119012508 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119012509 FtsX-like permease family; Region: FtsX; pfam02687 138119012510 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119012511 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119012512 Walker A/P-loop; other site 138119012513 ATP binding site [chemical binding]; other site 138119012514 Q-loop/lid; other site 138119012515 ABC transporter signature motif; other site 138119012516 Walker B; other site 138119012517 D-loop; other site 138119012518 H-loop/switch region; other site 138119012519 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 138119012520 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 138119012521 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 138119012522 putative ATP binding site [chemical binding]; other site 138119012523 putative substrate interface [chemical binding]; other site 138119012524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119012525 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 138119012526 active site 138119012527 phosphorylation site [posttranslational modification] 138119012528 intermolecular recognition site; other site 138119012529 dimerization interface [polypeptide binding]; other site 138119012530 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 138119012531 DNA binding site [nucleotide binding] 138119012532 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012533 dimerization interface [polypeptide binding]; other site 138119012534 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 138119012535 dimer interface [polypeptide binding]; other site 138119012536 phosphorylation site [posttranslational modification] 138119012537 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 138119012538 ATP binding site [chemical binding]; other site 138119012539 Mg2+ binding site [ion binding]; other site 138119012540 G-X-G motif; other site 138119012541 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 138119012542 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 138119012543 FMN binding site [chemical binding]; other site 138119012544 dimer interface [polypeptide binding]; other site 138119012545 Predicted membrane protein [Function unknown]; Region: COG2259 138119012546 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 138119012547 GAF domain; Region: GAF_2; pfam13185 138119012548 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119012549 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 138119012550 Walker A motif; other site 138119012551 ATP binding site [chemical binding]; other site 138119012552 Walker B motif; other site 138119012553 arginine finger; other site 138119012554 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119012555 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119012556 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 138119012557 FeS/SAM binding site; other site 138119012558 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 138119012559 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119012560 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119012561 Walker A/P-loop; other site 138119012562 ATP binding site [chemical binding]; other site 138119012563 Q-loop/lid; other site 138119012564 ABC transporter signature motif; other site 138119012565 Walker B; other site 138119012566 D-loop; other site 138119012567 H-loop/switch region; other site 138119012568 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119012569 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 138119012570 dimer interface [polypeptide binding]; other site 138119012571 conserved gate region; other site 138119012572 putative PBP binding loops; other site 138119012573 ABC-ATPase subunit interface; other site 138119012574 NMT1-like family; Region: NMT1_2; pfam13379 138119012575 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 138119012576 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119012577 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 138119012578 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 138119012579 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119012580 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 138119012581 nitrogenase iron protein; Region: nifH; TIGR01287 138119012582 Nucleotide-binding sites [chemical binding]; other site 138119012583 Walker A motif; other site 138119012584 Switch I region of nucleotide binding site; other site 138119012585 Fe4S4 binding sites [ion binding]; other site 138119012586 Switch II region of nucleotide binding site; other site 138119012587 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 138119012588 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119012589 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119012590 putative [Fe4-S4] binding site [ion binding]; other site 138119012591 putative molybdopterin cofactor binding site [chemical binding]; other site 138119012592 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119012593 putative molybdopterin cofactor binding site; other site 138119012594 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 138119012595 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 138119012596 catalytic triad [active] 138119012597 PemK-like protein; Region: PemK; pfam02452 138119012598 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 138119012599 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 138119012600 catalytic triad [active] 138119012601 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119012602 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 138119012603 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 138119012604 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 138119012605 putative ligand binding site [chemical binding]; other site 138119012606 putative NAD binding site [chemical binding]; other site 138119012607 catalytic site [active] 138119012608 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 138119012609 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 138119012610 trimer interface [polypeptide binding]; other site 138119012611 putative metal binding site [ion binding]; other site 138119012612 alanine racemase; Reviewed; Region: alr; PRK00053 138119012613 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 138119012614 active site 138119012615 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 138119012616 dimer interface [polypeptide binding]; other site 138119012617 substrate binding site [chemical binding]; other site 138119012618 catalytic residues [active] 138119012619 putative carbohydrate kinase; Provisional; Region: PRK10565 138119012620 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 138119012621 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 138119012622 putative substrate binding site [chemical binding]; other site 138119012623 putative ATP binding site [chemical binding]; other site 138119012624 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 138119012625 GAF domain; Region: GAF; cl17456 138119012626 Histidine kinase; Region: His_kinase; pfam06580 138119012627 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 138119012628 ATP binding site [chemical binding]; other site 138119012629 Mg2+ binding site [ion binding]; other site 138119012630 G-X-G motif; other site 138119012631 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119012632 DNA-binding site [nucleotide binding]; DNA binding site 138119012633 TrkA-C domain; Region: TrkA_C; pfam02080 138119012634 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 138119012635 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 138119012636 FeS/SAM binding site; other site 138119012637 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 138119012638 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119012639 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119012640 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119012641 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 138119012642 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 138119012643 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 138119012644 active site 138119012645 metal binding site [ion binding]; metal-binding site 138119012646 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 138119012647 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 138119012648 DNA binding site [nucleotide binding] 138119012649 active site 138119012650 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119012651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119012652 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119012653 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 138119012654 homodimer interaction site [polypeptide binding]; other site 138119012655 cofactor binding site; other site 138119012656 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 138119012657 dimanganese center [ion binding]; other site 138119012658 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 138119012659 Cache domain; Region: Cache_1; pfam02743 138119012660 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012661 dimerization interface [polypeptide binding]; other site 138119012662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119012663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119012664 dimer interface [polypeptide binding]; other site 138119012665 putative CheW interface [polypeptide binding]; other site 138119012666 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 138119012667 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 138119012668 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 138119012669 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 138119012670 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 138119012671 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119012672 putative active site [active] 138119012673 heme pocket [chemical binding]; other site 138119012674 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 138119012675 Walker A motif; other site 138119012676 ATP binding site [chemical binding]; other site 138119012677 Walker B motif; other site 138119012678 arginine finger; other site 138119012679 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 138119012680 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 138119012681 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 138119012682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119012683 catalytic residue [active] 138119012684 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 138119012685 homotrimer interaction site [polypeptide binding]; other site 138119012686 putative active site [active] 138119012687 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 138119012688 active site 138119012689 FMN binding site [chemical binding]; other site 138119012690 substrate binding site [chemical binding]; other site 138119012691 3Fe-4S cluster binding site [ion binding]; other site 138119012692 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012693 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012694 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119012695 PspC domain; Region: PspC; pfam04024 138119012696 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 138119012697 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 138119012698 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 138119012699 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 138119012700 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 138119012701 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 138119012702 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119012703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119012704 Walker A/P-loop; other site 138119012705 ATP binding site [chemical binding]; other site 138119012706 Q-loop/lid; other site 138119012707 ABC transporter signature motif; other site 138119012708 Walker B; other site 138119012709 D-loop; other site 138119012710 H-loop/switch region; other site 138119012711 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 138119012712 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119012713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119012714 Walker A/P-loop; other site 138119012715 ATP binding site [chemical binding]; other site 138119012716 Q-loop/lid; other site 138119012717 ABC transporter signature motif; other site 138119012718 Walker B; other site 138119012719 D-loop; other site 138119012720 H-loop/switch region; other site 138119012721 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 138119012722 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 138119012723 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 138119012724 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 138119012725 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 138119012726 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 138119012727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119012728 homodimer interface [polypeptide binding]; other site 138119012729 catalytic residue [active] 138119012730 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 138119012731 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 138119012732 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 138119012733 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 138119012734 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 138119012735 catalytic triad [active] 138119012736 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 138119012737 cobyric acid synthase; Provisional; Region: PRK00784 138119012738 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119012739 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119012740 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 138119012741 catalytic triad [active] 138119012742 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 138119012743 Precorrin-8X methylmutase; Region: CbiC; pfam02570 138119012744 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 138119012745 putative active site [active] 138119012746 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 138119012747 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 138119012748 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 138119012749 active site 138119012750 SAM binding site [chemical binding]; other site 138119012751 homodimer interface [polypeptide binding]; other site 138119012752 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 138119012753 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 138119012754 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 138119012755 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 138119012756 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 138119012757 active site 138119012758 SAM binding site [chemical binding]; other site 138119012759 homodimer interface [polypeptide binding]; other site 138119012760 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 138119012761 active site 138119012762 SAM binding site [chemical binding]; other site 138119012763 homodimer interface [polypeptide binding]; other site 138119012764 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 138119012765 active site 138119012766 putative homodimer interface [polypeptide binding]; other site 138119012767 SAM binding site [chemical binding]; other site 138119012768 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 138119012769 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 138119012770 S-adenosylmethionine binding site [chemical binding]; other site 138119012771 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 138119012772 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 138119012773 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 138119012774 Ligand binding site; other site 138119012775 metal-binding site 138119012776 FtsH Extracellular; Region: FtsH_ext; pfam06480 138119012777 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 138119012778 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 138119012779 Walker A motif; other site 138119012780 ATP binding site [chemical binding]; other site 138119012781 Walker B motif; other site 138119012782 arginine finger; other site 138119012783 Peptidase family M41; Region: Peptidase_M41; pfam01434 138119012784 Transcriptional regulators [Transcription]; Region: MarR; COG1846 138119012785 MarR family; Region: MarR_2; cl17246 138119012786 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 138119012787 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 138119012788 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 138119012789 putative active site [active] 138119012790 catalytic site [active] 138119012791 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 138119012792 putative active site [active] 138119012793 catalytic site [active] 138119012794 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 138119012795 4Fe-4S binding domain; Region: Fer4_5; pfam12801 138119012796 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119012797 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119012798 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 138119012799 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 138119012800 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 138119012801 [4Fe-4S] binding site [ion binding]; other site 138119012802 molybdopterin cofactor binding site; other site 138119012803 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 138119012804 molybdopterin cofactor binding site; other site 138119012805 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 138119012806 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 138119012807 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119012808 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 138119012809 active site 138119012810 phosphorylation site [posttranslational modification] 138119012811 intermolecular recognition site; other site 138119012812 dimerization interface [polypeptide binding]; other site 138119012813 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 138119012814 DNA binding site [nucleotide binding] 138119012815 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 138119012816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119012817 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012818 dimerization interface [polypeptide binding]; other site 138119012819 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 138119012820 dimer interface [polypeptide binding]; other site 138119012821 phosphorylation site [posttranslational modification] 138119012822 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 138119012823 ATP binding site [chemical binding]; other site 138119012824 Mg2+ binding site [ion binding]; other site 138119012825 G-X-G motif; other site 138119012826 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119012827 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119012828 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119012829 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119012830 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119012831 molybdopterin cofactor binding site; other site 138119012832 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119012833 putative molybdopterin cofactor binding site; other site 138119012834 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119012835 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119012836 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119012837 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119012838 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119012839 molybdopterin cofactor binding site; other site 138119012840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119012841 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 138119012842 active site 138119012843 dimerization interface [polypeptide binding]; other site 138119012844 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 138119012845 DNA binding site [nucleotide binding] 138119012846 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119012847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119012848 Walker A/P-loop; other site 138119012849 ATP binding site [chemical binding]; other site 138119012850 Q-loop/lid; other site 138119012851 ABC transporter signature motif; other site 138119012852 Walker B; other site 138119012853 D-loop; other site 138119012854 H-loop/switch region; other site 138119012855 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 138119012856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119012857 Walker A/P-loop; other site 138119012858 ATP binding site [chemical binding]; other site 138119012859 Q-loop/lid; other site 138119012860 ABC transporter signature motif; other site 138119012861 Walker B; other site 138119012862 D-loop; other site 138119012863 H-loop/switch region; other site 138119012864 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 138119012865 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119012866 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 138119012867 dimer interface [polypeptide binding]; other site 138119012868 conserved gate region; other site 138119012869 putative PBP binding loops; other site 138119012870 ABC-ATPase subunit interface; other site 138119012871 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119012872 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 138119012873 dimer interface [polypeptide binding]; other site 138119012874 conserved gate region; other site 138119012875 putative PBP binding loops; other site 138119012876 ABC-ATPase subunit interface; other site 138119012877 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 138119012878 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 138119012879 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 138119012880 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 138119012881 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 138119012882 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 138119012883 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 138119012884 putative DNA binding site [nucleotide binding]; other site 138119012885 catalytic residue [active] 138119012886 putative H2TH interface [polypeptide binding]; other site 138119012887 putative catalytic residues [active] 138119012888 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 138119012889 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 138119012890 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 138119012891 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 138119012892 aspartate racemase; Region: asp_race; TIGR00035 138119012893 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 138119012894 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 138119012895 putative NAD(P) binding site [chemical binding]; other site 138119012896 putative active site [active] 138119012897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119012898 Zn2+ binding site [ion binding]; other site 138119012899 Mg2+ binding site [ion binding]; other site 138119012900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 138119012901 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 138119012902 acyl-CoA synthetase; Validated; Region: PRK07788 138119012903 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119012904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119012905 active site 138119012906 CoA binding site [chemical binding]; other site 138119012907 AMP binding site [chemical binding]; other site 138119012908 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 138119012909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119012910 NAD(P) binding site [chemical binding]; other site 138119012911 active site 138119012912 phosphodiesterase YaeI; Provisional; Region: PRK11340 138119012913 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 138119012914 putative active site [active] 138119012915 putative metal binding site [ion binding]; other site 138119012916 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 138119012917 PAS domain S-box; Region: sensory_box; TIGR00229 138119012918 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119012919 putative active site [active] 138119012920 heme pocket [chemical binding]; other site 138119012921 GAF domain; Region: GAF_3; pfam13492 138119012922 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 138119012923 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119012924 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119012925 putative active site [active] 138119012926 heme pocket [chemical binding]; other site 138119012927 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 138119012928 dimer interface [polypeptide binding]; other site 138119012929 phosphorylation site [posttranslational modification] 138119012930 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 138119012931 ATP binding site [chemical binding]; other site 138119012932 Mg2+ binding site [ion binding]; other site 138119012933 G-X-G motif; other site 138119012934 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 138119012935 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 138119012936 Walker A/P-loop; other site 138119012937 ATP binding site [chemical binding]; other site 138119012938 Q-loop/lid; other site 138119012939 ABC transporter signature motif; other site 138119012940 Walker B; other site 138119012941 D-loop; other site 138119012942 H-loop/switch region; other site 138119012943 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 138119012944 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 138119012945 dimer interface [polypeptide binding]; other site 138119012946 conserved gate region; other site 138119012947 putative PBP binding loops; other site 138119012948 ABC-ATPase subunit interface; other site 138119012949 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 138119012950 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 138119012951 dimer interface [polypeptide binding]; other site 138119012952 conserved gate region; other site 138119012953 putative PBP binding loops; other site 138119012954 ABC-ATPase subunit interface; other site 138119012955 PBP superfamily domain; Region: PBP_like_2; cl17296 138119012956 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119012957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119012958 dimer interface [polypeptide binding]; other site 138119012959 putative CheW interface [polypeptide binding]; other site 138119012960 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 138119012961 PhoU domain; Region: PhoU; pfam01895 138119012962 PhoU domain; Region: PhoU; pfam01895 138119012963 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119012964 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 138119012965 active site 138119012966 phosphorylation site [posttranslational modification] 138119012967 intermolecular recognition site; other site 138119012968 dimerization interface [polypeptide binding]; other site 138119012969 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 138119012970 DNA binding site [nucleotide binding] 138119012971 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 138119012972 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 138119012973 FOG: CBS domain [General function prediction only]; Region: COG0517 138119012974 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119012975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119012976 metal binding site [ion binding]; metal-binding site 138119012977 active site 138119012978 I-site; other site 138119012979 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 138119012980 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 138119012981 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 138119012982 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 138119012983 PspC domain; Region: PspC; pfam04024 138119012984 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 138119012985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119012986 dimerization interface [polypeptide binding]; other site 138119012987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119012988 Histidine kinase; Region: HisKA_3; pfam07730 138119012989 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 138119012990 ATP binding site [chemical binding]; other site 138119012991 Mg2+ binding site [ion binding]; other site 138119012992 G-X-G motif; other site 138119012993 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119012994 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 138119012995 active site 138119012996 phosphorylation site [posttranslational modification] 138119012997 intermolecular recognition site; other site 138119012998 dimerization interface [polypeptide binding]; other site 138119012999 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 138119013000 DNA binding residues [nucleotide binding] 138119013001 dimerization interface [polypeptide binding]; other site 138119013002 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 138119013003 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119013004 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 138119013005 putative [Fe4-S4] binding site [ion binding]; other site 138119013006 putative molybdopterin cofactor binding site [chemical binding]; other site 138119013007 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 138119013008 putative molybdopterin cofactor binding site; other site 138119013009 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119013010 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119013011 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119013012 DGC domain; Region: DGC; cl01742 138119013013 DGC domain; Region: DGC; pfam08859 138119013014 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 138119013015 lipoyl attachment site [posttranslational modification]; other site 138119013016 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 138119013017 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 138119013018 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119013019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119013020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119013021 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138119013022 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 138119013023 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 138119013024 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119013025 catalytic residue [active] 138119013026 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 138119013027 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 138119013028 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 138119013029 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 138119013030 catalytic residues [active] 138119013031 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 138119013032 dimerization interface [polypeptide binding]; other site 138119013033 putative DNA binding site [nucleotide binding]; other site 138119013034 putative Zn2+ binding site [ion binding]; other site 138119013035 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119013036 active site residue [active] 138119013037 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119013038 active site residue [active] 138119013039 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 138119013040 arsenical-resistance protein; Region: acr3; TIGR00832 138119013041 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 138119013042 dimerization interface [polypeptide binding]; other site 138119013043 putative DNA binding site [nucleotide binding]; other site 138119013044 putative Zn2+ binding site [ion binding]; other site 138119013045 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 138119013046 Low molecular weight phosphatase family; Region: LMWPc; cd00115 138119013047 active site 138119013048 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119013049 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 138119013050 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 138119013051 dimerization interface [polypeptide binding]; other site 138119013052 putative DNA binding site [nucleotide binding]; other site 138119013053 putative Zn2+ binding site [ion binding]; other site 138119013054 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 138119013055 dimerization interface [polypeptide binding]; other site 138119013056 putative DNA binding site [nucleotide binding]; other site 138119013057 putative Zn2+ binding site [ion binding]; other site 138119013058 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 138119013059 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 138119013060 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 138119013061 P loop; other site 138119013062 Nucleotide binding site [chemical binding]; other site 138119013063 DTAP/Switch II; other site 138119013064 Switch I; other site 138119013065 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 138119013066 P loop; other site 138119013067 Nucleotide binding site [chemical binding]; other site 138119013068 DTAP/Switch II; other site 138119013069 Switch I; other site 138119013070 Haemolysin-III related; Region: HlyIII; pfam03006 138119013071 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 138119013072 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 138119013073 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119013074 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 138119013075 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 138119013076 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 138119013077 NodB motif; other site 138119013078 active site 138119013079 catalytic site [active] 138119013080 metal binding site [ion binding]; metal-binding site 138119013081 hypothetical protein; Provisional; Region: PRK02237 138119013082 NAD(P)H:flavin oxidoreductase-like family 2. 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_2; cd02151 138119013083 putative FMN binding site [chemical binding]; other site 138119013084 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 138119013085 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119013086 putative allantoin catabolism protein; Region: ura-cupin; TIGR03214 138119013087 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_1; cd02199 138119013088 homotrimer interaction site [polypeptide binding]; other site 138119013089 putative active site [active] 138119013090 allantoate amidohydrolase; Reviewed; Region: PRK09290 138119013091 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 138119013092 active site 138119013093 metal binding site [ion binding]; metal-binding site 138119013094 dimer interface [polypeptide binding]; other site 138119013095 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 138119013096 allantoinase; Region: allantoinase; TIGR03178 138119013097 active site 138119013098 allantoinase; Provisional; Region: PRK06189 138119013099 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 138119013100 active site 138119013101 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 138119013102 Na binding site [ion binding]; other site 138119013103 substrate binding site [chemical binding]; other site 138119013104 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 138119013105 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119013106 PYR/PP interface [polypeptide binding]; other site 138119013107 dimer interface [polypeptide binding]; other site 138119013108 TPP binding site [chemical binding]; other site 138119013109 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119013110 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 138119013111 TPP-binding site [chemical binding]; other site 138119013112 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 138119013113 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 138119013114 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 138119013115 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 138119013116 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 138119013117 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 138119013118 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119013119 putative substrate translocation pore; other site 138119013120 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119013121 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 138119013122 ligand binding site [chemical binding]; other site 138119013123 flexible hinge region; other site 138119013124 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 138119013125 putative switch regulator; other site 138119013126 non-specific DNA interactions [nucleotide binding]; other site 138119013127 DNA binding site [nucleotide binding] 138119013128 sequence specific DNA binding site [nucleotide binding]; other site 138119013129 putative cAMP binding site [chemical binding]; other site 138119013130 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 138119013131 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 138119013132 ACS interaction site; other site 138119013133 CODH interaction site; other site 138119013134 cubane metal cluster (B-cluster) [ion binding]; other site 138119013135 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 138119013136 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 138119013137 Int/Topo IB signature motif; other site 138119013138 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 138119013139 Ligand Binding Site [chemical binding]; other site 138119013140 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 138119013141 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119013142 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 138119013143 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 138119013144 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 138119013145 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 138119013146 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 138119013147 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 138119013148 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 138119013149 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 138119013150 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 138119013151 Na binding site [ion binding]; other site 138119013152 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 138119013153 hydroxyglutarate oxidase; Provisional; Region: PRK11728 138119013154 DNA polymerase IV; Reviewed; Region: PRK03103 138119013155 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 138119013156 active site 138119013157 DNA binding site [nucleotide binding] 138119013158 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroA; COG2876 138119013159 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 138119013160 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 138119013161 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 138119013162 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 138119013163 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 138119013164 dimer interface [polypeptide binding]; other site 138119013165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013166 catalytic residue [active] 138119013167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119013168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119013169 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 138119013170 putative dimerization interface [polypeptide binding]; other site 138119013171 Predicted membrane protein [Function unknown]; Region: COG2855 138119013172 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 138119013173 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 138119013174 homodimer interface [polypeptide binding]; other site 138119013175 substrate-cofactor binding pocket; other site 138119013176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013177 catalytic residue [active] 138119013178 Predicted transcriptional regulator [Transcription]; Region: COG1959 138119013179 Transcriptional regulator; Region: Rrf2; cl17282 138119013180 Nitrogen regulatory protein P-II; Region: P-II; smart00938 138119013181 Nitrogen regulatory protein P-II; Region: P-II; cl00412 138119013182 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 138119013183 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 138119013184 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119013185 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 138119013186 non-specific DNA binding site [nucleotide binding]; other site 138119013187 salt bridge; other site 138119013188 sequence-specific DNA binding site [nucleotide binding]; other site 138119013189 Probable zinc-binding domain; Region: zf-trcl; pfam13451 138119013190 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 138119013191 Transcriptional regulators [Transcription]; Region: MarR; COG1846 138119013192 MarR family; Region: MarR; pfam01047 138119013193 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 138119013194 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119013195 G5 domain; Region: G5; pfam07501 138119013196 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119013197 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119013198 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 138119013199 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 138119013200 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 138119013201 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 138119013202 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 138119013203 active site 138119013204 substrate-binding site [chemical binding]; other site 138119013205 metal-binding site [ion binding] 138119013206 ATP binding site [chemical binding]; other site 138119013207 putative hydratase; Provisional; Region: PRK11413 138119013208 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 138119013209 substrate binding site [chemical binding]; other site 138119013210 ligand binding site [chemical binding]; other site 138119013211 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 138119013212 substrate binding site [chemical binding]; other site 138119013213 SnoaL-like domain; Region: SnoaL_2; pfam12680 138119013214 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 138119013215 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 138119013216 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 138119013217 Fic/DOC family; Region: Fic; cl00960 138119013218 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 138119013219 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 138119013220 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 138119013221 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 138119013222 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 138119013223 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119013224 dimer interface [polypeptide binding]; other site 138119013225 putative CheW interface [polypeptide binding]; other site 138119013226 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119013227 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119013228 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119013229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119013230 phosphoenolpyruvate synthase; Validated; Region: PRK06241 138119013231 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119013232 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 138119013233 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 138119013234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119013235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119013236 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 138119013237 putative dimerization interface [polypeptide binding]; other site 138119013238 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 138119013239 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119013240 putative substrate translocation pore; other site 138119013241 Putative zinc-finger; Region: zf-HC2; pfam13490 138119013242 Predicted integral membrane protein (DUF2275); Region: DUF2275; pfam10039 138119013243 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119013244 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119013245 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 138119013246 DNA binding residues [nucleotide binding] 138119013247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119013248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119013249 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 138119013250 dimerization interface [polypeptide binding]; other site 138119013251 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 138119013252 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 138119013253 FMN-binding domain; Region: FMN_bind; cl01081 138119013254 CcmB protein; Region: CcmB; cl17444 138119013255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119013256 Walker A/P-loop; other site 138119013257 ATP binding site [chemical binding]; other site 138119013258 Q-loop/lid; other site 138119013259 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 138119013260 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119013261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119013262 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 138119013263 DNA binding residues [nucleotide binding] 138119013264 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119013265 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119013266 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 138119013267 DNA binding residues [nucleotide binding] 138119013268 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 138119013269 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 138119013270 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 138119013271 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 138119013272 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 138119013273 GIY-YIG motif/motif A; other site 138119013274 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 138119013275 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 138119013276 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 138119013277 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119013278 ABC transporter; Region: ABC_tran_2; pfam12848 138119013279 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119013280 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 138119013281 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 138119013282 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 138119013283 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 138119013284 DNA binding residues [nucleotide binding] 138119013285 dimer interface [polypeptide binding]; other site 138119013286 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 138119013287 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 138119013288 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 138119013289 motif II; other site 138119013290 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 138119013291 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 138119013292 tetramer interface [polypeptide binding]; other site 138119013293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013294 catalytic residue [active] 138119013295 Uncharacterized conserved protein [Function unknown]; Region: COG2135 138119013296 threonine dehydratase; Provisional; Region: PRK08198 138119013297 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 138119013298 tetramer interface [polypeptide binding]; other site 138119013299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013300 catalytic residue [active] 138119013301 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 138119013302 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 138119013303 predicted active site [active] 138119013304 catalytic triad [active] 138119013305 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 138119013306 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 138119013307 active site 138119013308 multimer interface [polypeptide binding]; other site 138119013309 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 138119013310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119013311 DNA-binding site [nucleotide binding]; DNA binding site 138119013312 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 138119013313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013314 homodimer interface [polypeptide binding]; other site 138119013315 catalytic residue [active] 138119013316 spermidine synthase; Provisional; Region: PRK00811 138119013317 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 138119013318 S-adenosylmethionine binding site [chemical binding]; other site 138119013319 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 138119013320 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 138119013321 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 138119013322 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 138119013323 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 138119013324 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 138119013325 protein binding site [polypeptide binding]; other site 138119013326 DctM-like transporters; Region: DctM; pfam06808 138119013327 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 138119013328 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 138119013329 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119013330 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 138119013331 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119013332 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 138119013333 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 138119013334 Nitrogen regulatory protein P-II; Region: P-II; smart00938 138119013335 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119013336 putative CheW interface [polypeptide binding]; other site 138119013337 Cache domain; Region: Cache_1; pfam02743 138119013338 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 138119013339 Nitrogen regulatory protein P-II; Region: P-II; smart00938 138119013340 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 138119013341 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 138119013342 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 138119013343 active site 138119013344 catalytic residues [active] 138119013345 metal binding site [ion binding]; metal-binding site 138119013346 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 138119013347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119013348 Coenzyme A binding pocket [chemical binding]; other site 138119013349 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 138119013350 Radical SAM superfamily; Region: Radical_SAM; pfam04055 138119013351 FeS/SAM binding site; other site 138119013352 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 138119013353 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 138119013354 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 138119013355 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 138119013356 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 138119013357 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 138119013358 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 138119013359 MoFe protein beta/alpha subunit interactions; other site 138119013360 Beta subunit P cluster binding residues; other site 138119013361 MoFe protein beta subunit/Fe protein contacts; other site 138119013362 MoFe protein dimer/ dimer interactions; other site 138119013363 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 138119013364 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 138119013365 MoFe protein alpha/beta subunit interactions; other site 138119013366 Alpha subunit P cluster binding residues; other site 138119013367 FeMoco binding residues [chemical binding]; other site 138119013368 MoFe protein alpha subunit/Fe protein contacts; other site 138119013369 MoFe protein dimer/ dimer interactions; other site 138119013370 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 138119013371 nitrogenase iron protein; Region: nifH; TIGR01287 138119013372 Nucleotide-binding sites [chemical binding]; other site 138119013373 Walker A motif; other site 138119013374 Switch I region of nucleotide binding site; other site 138119013375 Fe4S4 binding sites [ion binding]; other site 138119013376 Switch II region of nucleotide binding site; other site 138119013377 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 138119013378 Nitrogen regulatory protein P-II; Region: P-II; smart00938 138119013379 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 138119013380 Nitrogen regulatory protein P-II; Region: P-II; smart00938 138119013381 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 138119013382 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 138119013383 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 138119013384 dimer interface [polypeptide binding]; other site 138119013385 conserved gate region; other site 138119013386 putative PBP binding loops; other site 138119013387 ABC-ATPase subunit interface; other site 138119013388 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 138119013389 dimer interface [polypeptide binding]; other site 138119013390 conserved gate region; other site 138119013391 putative PBP binding loops; other site 138119013392 ABC-ATPase subunit interface; other site 138119013393 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 138119013394 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138119013395 substrate binding pocket [chemical binding]; other site 138119013396 membrane-bound complex binding site; other site 138119013397 hinge residues; other site 138119013398 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119013399 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119013400 Walker A/P-loop; other site 138119013401 ATP binding site [chemical binding]; other site 138119013402 Q-loop/lid; other site 138119013403 ABC transporter signature motif; other site 138119013404 Walker B; other site 138119013405 D-loop; other site 138119013406 H-loop/switch region; other site 138119013407 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 138119013408 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 138119013409 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119013410 catalytic residue [active] 138119013411 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 138119013412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119013413 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 138119013414 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 138119013415 lipoyl attachment site [posttranslational modification]; other site 138119013416 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 138119013417 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119013418 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 138119013419 ligand binding site [chemical binding]; other site 138119013420 flexible hinge region; other site 138119013421 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 138119013422 putative switch regulator; other site 138119013423 non-specific DNA interactions [nucleotide binding]; other site 138119013424 DNA binding site [nucleotide binding] 138119013425 sequence specific DNA binding site [nucleotide binding]; other site 138119013426 putative cAMP binding site [chemical binding]; other site 138119013427 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119013428 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 138119013429 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 138119013430 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 138119013431 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 138119013432 inhibitor-cofactor binding pocket; inhibition site 138119013433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013434 catalytic residue [active] 138119013435 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 138119013436 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 138119013437 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 138119013438 non-specific DNA binding site [nucleotide binding]; other site 138119013439 salt bridge; other site 138119013440 sequence-specific DNA binding site [nucleotide binding]; other site 138119013441 Cupin domain; Region: Cupin_2; pfam07883 138119013442 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 138119013443 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 138119013444 non-specific DNA binding site [nucleotide binding]; other site 138119013445 salt bridge; other site 138119013446 sequence-specific DNA binding site [nucleotide binding]; other site 138119013447 Cupin domain; Region: Cupin_2; pfam07883 138119013448 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 138119013449 FOG: CBS domain [General function prediction only]; Region: COG0517 138119013450 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 138119013451 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119013452 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 138119013453 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 138119013454 Zn2+ binding site [ion binding]; other site 138119013455 Mg2+ binding site [ion binding]; other site 138119013456 hydroperoxidase II; Provisional; Region: katE; PRK11249 138119013457 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 138119013458 heme binding pocket [chemical binding]; other site 138119013459 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 138119013460 domain interactions; other site 138119013461 ferredoxin-like protein FixX; Provisional; Region: PRK15449 138119013462 oxidoreductase; Provisional; Region: PRK10015 138119013463 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 138119013464 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119013465 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119013466 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119013467 acyl-activating enzyme (AAE) consensus motif; other site 138119013468 AMP binding site [chemical binding]; other site 138119013469 active site 138119013470 CoA binding site [chemical binding]; other site 138119013471 TIGR03084 family protein; Region: TIGR03084 138119013472 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 138119013473 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 138119013474 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 138119013475 active site 138119013476 FMN binding site [chemical binding]; other site 138119013477 substrate binding site [chemical binding]; other site 138119013478 putative catalytic residue [active] 138119013479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119013480 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 138119013481 putative substrate translocation pore; other site 138119013482 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 138119013483 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 138119013484 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 138119013485 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 138119013486 active site 138119013487 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 138119013488 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; cd01985 138119013489 Ligand binding site [chemical binding]; other site 138119013490 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119013491 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 138119013492 Ligand binding site [chemical binding]; other site 138119013493 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119013494 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 138119013495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119013496 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119013497 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 138119013498 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 138119013499 putative substrate translocation pore; other site 138119013500 enoyl-CoA hydratase; Provisional; Region: PRK06688 138119013501 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 138119013502 substrate binding site [chemical binding]; other site 138119013503 oxyanion hole (OAH) forming residues; other site 138119013504 trimer interface [polypeptide binding]; other site 138119013505 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119013506 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 138119013507 Walker A motif; other site 138119013508 ATP binding site [chemical binding]; other site 138119013509 Walker B motif; other site 138119013510 arginine finger; other site 138119013511 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119013512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119013513 2-isopropylmalate synthase; Validated; Region: PRK03739 138119013514 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 138119013515 active site 138119013516 catalytic residues [active] 138119013517 metal binding site [ion binding]; metal-binding site 138119013518 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 138119013519 DNA polymerase III PolC; Validated; Region: polC; PRK00448 138119013520 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 138119013521 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 138119013522 generic binding surface II; other site 138119013523 generic binding surface I; other site 138119013524 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 138119013525 active site 138119013526 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 138119013527 active site 138119013528 catalytic site [active] 138119013529 substrate binding site [chemical binding]; other site 138119013530 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 138119013531 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119013532 dimerization interface [polypeptide binding]; other site 138119013533 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 138119013534 dimer interface [polypeptide binding]; other site 138119013535 phosphorylation site [posttranslational modification] 138119013536 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 138119013537 ATP binding site [chemical binding]; other site 138119013538 Mg2+ binding site [ion binding]; other site 138119013539 G-X-G motif; other site 138119013540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119013541 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 138119013542 active site 138119013543 phosphorylation site [posttranslational modification] 138119013544 intermolecular recognition site; other site 138119013545 dimerization interface [polypeptide binding]; other site 138119013546 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 138119013547 DNA binding site [nucleotide binding] 138119013548 threonine dehydratase; Validated; Region: PRK08639 138119013549 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 138119013550 tetramer interface [polypeptide binding]; other site 138119013551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119013552 catalytic residue [active] 138119013553 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 138119013554 putative Ile/Val binding site [chemical binding]; other site 138119013555 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 138119013556 putative active site [active] 138119013557 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119013558 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119013559 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119013560 Walker A/P-loop; other site 138119013561 ATP binding site [chemical binding]; other site 138119013562 Q-loop/lid; other site 138119013563 ABC transporter signature motif; other site 138119013564 Walker B; other site 138119013565 D-loop; other site 138119013566 H-loop/switch region; other site 138119013567 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 138119013568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119013569 Walker A/P-loop; other site 138119013570 ATP binding site [chemical binding]; other site 138119013571 Q-loop/lid; other site 138119013572 ABC transporter signature motif; other site 138119013573 Walker B; other site 138119013574 D-loop; other site 138119013575 H-loop/switch region; other site 138119013576 BioY family; Region: BioY; pfam02632 138119013577 hydrolase family protein; Region: PLN02887 138119013578 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 138119013579 4Fe-4S binding domain; Region: Fer4; cl02805 138119013580 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 138119013581 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; cl17736 138119013582 active site 138119013583 phosphorylation site [posttranslational modification] 138119013584 intermolecular recognition site; other site 138119013585 dimerization interface [polypeptide binding]; other site 138119013586 ANTAR domain; Region: ANTAR; pfam03861 138119013587 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 138119013588 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 138119013589 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 138119013590 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 138119013591 active site 138119013592 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 138119013593 dimer interface [polypeptide binding]; other site 138119013594 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 138119013595 Ligand Binding Site [chemical binding]; other site 138119013596 Molecular Tunnel; other site 138119013597 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_34; cd04693 138119013598 nudix motif; other site 138119013599 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 138119013600 putative active site [active] 138119013601 4Fe-4S binding domain; Region: Fer4; pfam00037 138119013602 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119013603 Methyltransferase domain; Region: Methyltransf_23; pfam13489 138119013604 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 138119013605 S-adenosylmethionine binding site [chemical binding]; other site 138119013606 Short C-terminal domain; Region: SHOCT; pfam09851 138119013607 Cupin domain; Region: Cupin_2; pfam07883 138119013608 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 138119013609 H+ Antiporter protein; Region: 2A0121; TIGR00900 138119013610 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 138119013611 putative substrate translocation pore; other site 138119013612 phenylhydantoinase; Validated; Region: PRK08323 138119013613 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 138119013614 active site 138119013615 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 138119013616 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 138119013617 active site 138119013618 putative substrate binding pocket [chemical binding]; other site 138119013619 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 138119013620 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 138119013621 D-galactonate transporter; Region: 2A0114; TIGR00893 138119013622 putative substrate translocation pore; other site 138119013623 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 138119013624 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 138119013625 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 138119013626 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 138119013627 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 138119013628 homotrimer interaction site [polypeptide binding]; other site 138119013629 putative active site [active] 138119013630 allantoate amidohydrolase; Reviewed; Region: PRK12893 138119013631 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 138119013632 active site 138119013633 metal binding site [ion binding]; metal-binding site 138119013634 dimer interface [polypeptide binding]; other site 138119013635 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 138119013636 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 138119013637 Walker A/P-loop; other site 138119013638 ATP binding site [chemical binding]; other site 138119013639 Q-loop/lid; other site 138119013640 ABC transporter signature motif; other site 138119013641 Walker B; other site 138119013642 D-loop; other site 138119013643 H-loop/switch region; other site 138119013644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 138119013645 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 138119013646 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 138119013647 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 138119013648 dimer interface [polypeptide binding]; other site 138119013649 conserved gate region; other site 138119013650 putative PBP binding loops; other site 138119013651 ABC-ATPase subunit interface; other site 138119013652 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 138119013653 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 138119013654 dimer interface [polypeptide binding]; other site 138119013655 conserved gate region; other site 138119013656 putative PBP binding loops; other site 138119013657 ABC-ATPase subunit interface; other site 138119013658 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 138119013659 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 138119013660 S-adenosylmethionine binding site [chemical binding]; other site 138119013661 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 138119013662 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 138119013663 catalytic site [active] 138119013664 putative active site [active] 138119013665 putative substrate binding site [chemical binding]; other site 138119013666 Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences; Region: DNA_pol_A_Aquificae_like; cd08639 138119013667 active site 138119013668 DNA binding site [nucleotide binding] 138119013669 catalytic site [active] 138119013670 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119013671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119013672 Coenzyme A binding pocket [chemical binding]; other site 138119013673 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 138119013674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119013675 Coenzyme A binding pocket [chemical binding]; other site 138119013676 Methyltransferase domain; Region: Methyltransf_31; pfam13847 138119013677 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 138119013678 S-adenosylmethionine binding site [chemical binding]; other site 138119013679 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119013680 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 138119013681 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 138119013682 salt bridge; other site 138119013683 non-specific DNA binding site [nucleotide binding]; other site 138119013684 sequence-specific DNA binding site [nucleotide binding]; other site 138119013685 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 138119013686 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119013687 Transcriptional regulator PadR-like family; Region: PadR; cl17335 138119013688 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 138119013689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 138119013690 Coenzyme A binding pocket [chemical binding]; other site 138119013691 Domain of unknown function (DUF4275); Region: DUF4275; pfam14101 138119013692 aminoglycoside resistance protein; Provisional; Region: PRK13746 138119013693 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 138119013694 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 138119013695 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 138119013696 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 138119013697 ATP binding site [chemical binding]; other site 138119013698 putative Mg++ binding site [ion binding]; other site 138119013699 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; cl17351 138119013700 nucleotide binding region [chemical binding]; other site 138119013701 ATP-binding site [chemical binding]; other site 138119013702 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 138119013703 PLD-like domain; Region: PLDc_2; pfam13091 138119013704 RibD C-terminal domain; Region: RibD_C; cl17279 138119013705 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 138119013706 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 138119013707 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 138119013708 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 138119013709 active site 138119013710 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 138119013711 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 138119013712 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 138119013713 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 138119013714 active site 138119013715 dimer interface [polypeptide binding]; other site 138119013716 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 138119013717 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 138119013718 active site 138119013719 FMN binding site [chemical binding]; other site 138119013720 substrate binding site [chemical binding]; other site 138119013721 3Fe-4S cluster binding site [ion binding]; other site 138119013722 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 138119013723 domain interface; other site 138119013724 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 138119013725 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 138119013726 non-specific DNA binding site [nucleotide binding]; other site 138119013727 salt bridge; other site 138119013728 sequence-specific DNA binding site [nucleotide binding]; other site 138119013729 Cupin domain; Region: Cupin_2; pfam07883 138119013730 AzlC protein; Region: AzlC; pfam03591 138119013731 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 138119013732 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 138119013733 Mechanosensitive ion channel; Region: MS_channel; pfam00924 138119013734 HAMP domain; Region: HAMP; pfam00672 138119013735 dimerization interface [polypeptide binding]; other site 138119013736 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 138119013737 dimer interface [polypeptide binding]; other site 138119013738 phosphorylation site [posttranslational modification] 138119013739 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 138119013740 ATP binding site [chemical binding]; other site 138119013741 Mg2+ binding site [ion binding]; other site 138119013742 G-X-G motif; other site 138119013743 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119013744 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 138119013745 active site 138119013746 phosphorylation site [posttranslational modification] 138119013747 intermolecular recognition site; other site 138119013748 dimerization interface [polypeptide binding]; other site 138119013749 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 138119013750 DNA binding site [nucleotide binding] 138119013751 Protein of unknown function (DUF867); Region: DUF867; pfam05908 138119013752 Protein of unknown function (DUF867); Region: DUF867; pfam05908 138119013753 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 138119013754 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 138119013755 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 138119013756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119013757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119013758 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119013759 dimerization interface [polypeptide binding]; other site 138119013760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 138119013761 Sterol carrier protein domain; Region: SCP2_2; pfam13530 138119013762 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 138119013763 dimerization interface [polypeptide binding]; other site 138119013764 putative DNA binding site [nucleotide binding]; other site 138119013765 putative Zn2+ binding site [ion binding]; other site 138119013766 Heavy-metal-associated domain; Region: HMA; pfam00403 138119013767 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119013768 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119013769 Heavy-metal-associated domain; Region: HMA; pfam00403 138119013770 metal-binding site [ion binding] 138119013771 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 138119013772 dimerization interface [polypeptide binding]; other site 138119013773 putative DNA binding site [nucleotide binding]; other site 138119013774 putative Zn2+ binding site [ion binding]; other site 138119013775 Alkaline phosphatase homologues; Region: alkPPc; smart00098 138119013776 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 138119013777 active site 138119013778 dimer interface [polypeptide binding]; other site 138119013779 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 138119013780 YibE/F-like protein; Region: YibE_F; pfam07907 138119013781 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 138119013782 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 138119013783 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 138119013784 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 138119013785 FMN binding site [chemical binding]; other site 138119013786 dimer interface [polypeptide binding]; other site 138119013787 Uncharacterized conserved protein [Function unknown]; Region: COG2006 138119013788 Domain of unknown function (DUF362); Region: DUF362; pfam04015 138119013789 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119013790 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119013791 quinolinate synthetase; Provisional; Region: PRK09375 138119013792 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119013793 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119013794 putative active site [active] 138119013795 heme pocket [chemical binding]; other site 138119013796 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 138119013797 dimer interface [polypeptide binding]; other site 138119013798 phosphorylation site [posttranslational modification] 138119013799 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 138119013800 ATP binding site [chemical binding]; other site 138119013801 Mg2+ binding site [ion binding]; other site 138119013802 G-X-G motif; other site 138119013803 Accessory gene regulator B; Region: AgrB; pfam04647 138119013804 benzoate transporter; Region: benE; TIGR00843 138119013805 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 138119013806 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 138119013807 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 138119013808 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119013809 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 138119013810 DNA binding residues [nucleotide binding] 138119013811 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119013812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119013813 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 138119013814 DNA binding residues [nucleotide binding] 138119013815 Putative zinc-finger; Region: zf-HC2; pfam13490 138119013816 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 138119013817 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 138119013818 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119013819 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119013820 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 138119013821 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 138119013822 envelope glycoprotein E; Provisional; Region: PHA03281 138119013823 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 138119013824 dimer interface [polypeptide binding]; other site 138119013825 active site 138119013826 citrylCoA binding site [chemical binding]; other site 138119013827 Citrate synthase; Region: Citrate_synt; pfam00285 138119013828 oxalacetate/citrate binding site [chemical binding]; other site 138119013829 coenzyme A binding site [chemical binding]; other site 138119013830 catalytic triad [active] 138119013831 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 138119013832 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 138119013833 gating phenylalanine in ion channel; other site 138119013834 Sporulation and spore germination; Region: Germane; pfam10646 138119013835 Uncharacterized conserved protein [Function unknown]; Region: COG3391 138119013836 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119013837 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119013838 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 138119013839 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 138119013840 active site 138119013841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 138119013842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 138119013843 NAD(P) binding site [chemical binding]; other site 138119013844 active site 138119013845 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 138119013846 TrkA-N domain; Region: TrkA_N; pfam02254 138119013847 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 138119013848 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 138119013849 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 138119013850 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119013851 Methyltransferase domain; Region: Methyltransf_23; pfam13489 138119013852 Methyltransferase domain; Region: Methyltransf_11; pfam08241 138119013853 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119013854 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119013855 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119013856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119013857 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 138119013858 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 138119013859 putative metal binding site; other site 138119013860 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 138119013861 binding surface 138119013862 TPR motif; other site 138119013863 BclB C-terminal domain; Region: exospore_TM; TIGR03721 138119013864 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 138119013865 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 138119013866 active site 138119013867 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 138119013868 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 138119013869 NAD binding site [chemical binding]; other site 138119013870 substrate binding site [chemical binding]; other site 138119013871 active site 138119013872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 138119013873 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119013874 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119013875 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 138119013876 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 138119013877 ACS interaction site; other site 138119013878 CODH interaction site; other site 138119013879 cubane metal cluster (B-cluster) [ion binding]; other site 138119013880 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 138119013881 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 138119013882 4Fe-4S binding domain; Region: Fer4; cl02805 138119013883 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119013884 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 138119013885 ligand binding site [chemical binding]; other site 138119013886 flexible hinge region; other site 138119013887 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 138119013888 non-specific DNA interactions [nucleotide binding]; other site 138119013889 DNA binding site [nucleotide binding] 138119013890 sequence specific DNA binding site [nucleotide binding]; other site 138119013891 putative cAMP binding site [chemical binding]; other site 138119013892 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 138119013893 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 138119013894 Walker A/P-loop; other site 138119013895 ATP binding site [chemical binding]; other site 138119013896 Q-loop/lid; other site 138119013897 ABC transporter signature motif; other site 138119013898 Walker B; other site 138119013899 D-loop; other site 138119013900 H-loop/switch region; other site 138119013901 NMT1/THI5 like; Region: NMT1; pfam09084 138119013902 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 138119013903 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 138119013904 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 138119013905 dimer interface [polypeptide binding]; other site 138119013906 conserved gate region; other site 138119013907 putative PBP binding loops; other site 138119013908 ABC-ATPase subunit interface; other site 138119013909 Domain of unknown function DUF77; Region: DUF77; pfam01910 138119013910 Repair protein; Region: Repair_PSII; pfam04536 138119013911 LemA family; Region: LemA; cl00742 138119013912 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 138119013913 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 138119013914 Ligand Binding Site [chemical binding]; other site 138119013915 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 138119013916 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 138119013917 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 138119013918 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 138119013919 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 138119013920 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 138119013921 Protease prsW family; Region: PrsW-protease; pfam13367 138119013922 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 138119013923 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 138119013924 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119013925 catalytic residue [active] 138119013926 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 138119013927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119013928 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 138119013929 catalytic residues [active] 138119013930 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 138119013931 catalytic residues [active] 138119013932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119013933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119013934 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119013935 dimerization interface [polypeptide binding]; other site 138119013936 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 138119013937 putative homodimer interface [polypeptide binding]; other site 138119013938 putative homotetramer interface [polypeptide binding]; other site 138119013939 putative allosteric switch controlling residues; other site 138119013940 putative metal binding site [ion binding]; other site 138119013941 putative homodimer-homodimer interface [polypeptide binding]; other site 138119013942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 138119013943 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 138119013944 DsrC like protein; Region: DsrC; pfam04358 138119013945 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 138119013946 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 138119013947 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 138119013948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 138119013949 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 138119013950 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 138119013951 catalytic residues [active] 138119013952 Predicted membrane protein [Function unknown]; Region: COG3356 138119013953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119013954 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119013955 Walker A/P-loop; other site 138119013956 ATP binding site [chemical binding]; other site 138119013957 Q-loop/lid; other site 138119013958 ABC transporter signature motif; other site 138119013959 Walker B; other site 138119013960 D-loop; other site 138119013961 H-loop/switch region; other site 138119013962 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 138119013963 Catalytic site [active] 138119013964 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 138119013965 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 138119013966 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 138119013967 Spore germination protein; Region: Spore_permease; cl17796 138119013968 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 138119013969 Cellulose binding domain; Region: CBM_2; cl17741 138119013970 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 138119013971 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 138119013972 Predicted transcriptional regulators [Transcription]; Region: COG1695 138119013973 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 138119013974 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 138119013975 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 138119013976 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 138119013977 glutaminase active site [active] 138119013978 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 138119013979 dimer interface [polypeptide binding]; other site 138119013980 active site 138119013981 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 138119013982 dimer interface [polypeptide binding]; other site 138119013983 active site 138119013984 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 138119013985 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 138119013986 active site 138119013987 substrate binding site [chemical binding]; other site 138119013988 metal binding site [ion binding]; metal-binding site 138119013989 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 138119013990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 138119013991 Uncharacterized conserved protein [Function unknown]; Region: COG1624 138119013992 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 138119013993 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 138119013994 homodimer interface [polypeptide binding]; other site 138119013995 metal binding site [ion binding]; metal-binding site 138119013996 Uncharacterized conserved protein [Function unknown]; Region: COG2006 138119013997 Domain of unknown function (DUF362); Region: DUF362; pfam04015 138119013998 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119013999 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119014000 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 138119014001 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 138119014002 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: GT1_like_1; cd04950 138119014003 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119014004 putative homodimer interface [polypeptide binding]; other site 138119014005 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 138119014006 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119014007 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 138119014008 amidase catalytic site [active] 138119014009 Zn binding residues [ion binding]; other site 138119014010 substrate binding site [chemical binding]; other site 138119014011 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 138119014012 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 138119014013 putative active site [active] 138119014014 putative metal binding site [ion binding]; other site 138119014015 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 138119014016 Domain of unknown function DUF21; Region: DUF21; pfam01595 138119014017 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 138119014018 Transporter associated domain; Region: CorC_HlyC; smart01091 138119014019 Rrf2 family protein; Region: rrf2_super; TIGR00738 138119014020 Transcriptional regulator; Region: Rrf2; pfam02082 138119014021 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 138119014022 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119014023 putative substrate translocation pore; other site 138119014024 Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may...; Region: Band_7_prohibitin; cd03401 138119014025 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 138119014026 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 138119014027 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 138119014028 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 138119014029 peptide binding site [polypeptide binding]; other site 138119014030 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 138119014031 metal-binding site [ion binding] 138119014032 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119014033 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 138119014034 metal-binding site [ion binding] 138119014035 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119014036 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 138119014037 metal-binding site [ion binding] 138119014038 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119014039 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 138119014040 motif II; other site 138119014041 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 138119014042 putative homodimer interface [polypeptide binding]; other site 138119014043 putative homotetramer interface [polypeptide binding]; other site 138119014044 allosteric switch controlling residues; other site 138119014045 putative metal binding site [ion binding]; other site 138119014046 putative homodimer-homodimer interface [polypeptide binding]; other site 138119014047 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 138119014048 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 138119014049 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119014050 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 138119014051 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014052 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014053 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014054 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119014055 Cysteine-rich domain; Region: CCG; pfam02754 138119014056 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 138119014057 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 138119014058 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 138119014059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119014060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119014061 metal binding site [ion binding]; metal-binding site 138119014062 active site 138119014063 I-site; other site 138119014064 Tim44-like domain; Region: Tim44; cl09208 138119014065 phage shock protein A; Region: phageshock_pspA; TIGR02977 138119014066 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 138119014067 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 138119014068 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 138119014069 NlpC/P60 family; Region: NLPC_P60; pfam00877 138119014070 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 138119014071 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119014072 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014073 dimerization interface [polypeptide binding]; other site 138119014074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119014075 dimer interface [polypeptide binding]; other site 138119014076 putative CheW interface [polypeptide binding]; other site 138119014077 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 138119014078 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119014079 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119014080 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 138119014081 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 138119014082 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 138119014083 Walker A motif; other site 138119014084 ATP binding site [chemical binding]; other site 138119014085 Walker B motif; other site 138119014086 arginine finger; other site 138119014087 Peptidase family M41; Region: Peptidase_M41; pfam01434 138119014088 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119014089 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119014090 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119014091 heat shock protein HtpX; Provisional; Region: PRK03982 138119014092 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 138119014093 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 138119014094 Transposase; Region: DEDD_Tnp_IS110; pfam01548 138119014095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 138119014096 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 138119014097 CHC2 zinc finger; Region: zf-CHC2; cl17510 138119014098 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 138119014099 Toprim-like; Region: Toprim_2; pfam13155 138119014100 active site 138119014101 metal binding site [ion binding]; metal-binding site 138119014102 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 138119014103 Sel1-like repeats; Region: SEL1; smart00671 138119014104 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 138119014105 Sel1-like repeats; Region: SEL1; smart00671 138119014106 Sel1-like repeats; Region: SEL1; smart00671 138119014107 Sel1-like repeats; Region: SEL1; smart00671 138119014108 Sel1-like repeats; Region: SEL1; smart00671 138119014109 Sel1-like repeats; Region: SEL1; smart00671 138119014110 Sel1-like repeats; Region: SEL1; smart00671 138119014111 Sel1-like repeats; Region: SEL1; smart00671 138119014112 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 138119014113 Mg binding site [ion binding]; other site 138119014114 nucleotide binding site [chemical binding]; other site 138119014115 putative protofilament interface [polypeptide binding]; other site 138119014116 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119014117 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119014118 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 138119014119 putative active site pocket [active] 138119014120 dimerization interface [polypeptide binding]; other site 138119014121 putative catalytic residue [active] 138119014122 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 138119014123 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 138119014124 AAA-like domain; Region: AAA_10; pfam12846 138119014125 Walker A motif; other site 138119014126 ATP binding site [chemical binding]; other site 138119014127 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 138119014128 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119014129 putative active site [active] 138119014130 putative NTP binding site [chemical binding]; other site 138119014131 putative nucleic acid binding site [nucleotide binding]; other site 138119014132 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 138119014133 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 138119014134 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 138119014135 putative active site [active] 138119014136 putative NTP binding site [chemical binding]; other site 138119014137 putative nucleic acid binding site [nucleotide binding]; other site 138119014138 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119014139 Type II intron maturase; Region: Intron_maturas2; pfam01348 138119014140 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 138119014141 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 138119014142 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119014143 Walker A motif; other site 138119014144 ATP binding site [chemical binding]; other site 138119014145 Walker B motif; other site 138119014146 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 138119014147 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 138119014148 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 138119014149 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 138119014150 SpoVG; Region: SpoVG; pfam04026 138119014151 S-layer homology domain; Region: SLH; pfam00395 138119014152 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 138119014153 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 138119014154 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 138119014155 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 138119014156 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119014157 putative active site [active] 138119014158 putative NTP binding site [chemical binding]; other site 138119014159 putative nucleic acid binding site [nucleotide binding]; other site 138119014160 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 138119014161 Winged helix-turn helix; Region: HTH_29; pfam13551 138119014162 Homeodomain-like domain; Region: HTH_32; pfam13565 138119014163 Integrase core domain; Region: rve; pfam00665 138119014164 Integrase core domain; Region: rve_3; pfam13683 138119014165 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 138119014166 putative transposase OrfB; Reviewed; Region: PHA02517 138119014167 HTH-like domain; Region: HTH_21; pfam13276 138119014168 Integrase core domain; Region: rve; pfam00665 138119014169 Integrase core domain; Region: rve_3; pfam13683 138119014170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119014171 Transposase; Region: HTH_Tnp_1; pfam01527 138119014172 Transposase [DNA replication, recombination, and repair]; Region: COG5421 138119014173 TIR domain; Region: TIR_2; pfam13676 138119014174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119014175 Transposase; Region: HTH_Tnp_1; pfam01527 138119014176 putative transposase OrfB; Reviewed; Region: PHA02517 138119014177 HTH-like domain; Region: HTH_21; pfam13276 138119014178 Integrase core domain; Region: rve; pfam00665 138119014179 Integrase core domain; Region: rve_3; pfam13683 138119014180 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 138119014181 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 138119014182 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119014183 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119014184 catalytic residues [active] 138119014185 Recombinase; Region: Recombinase; pfam07508 138119014186 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119014187 Recombinase; Region: Recombinase; pfam07508 138119014188 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119014189 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119014190 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119014191 catalytic residues [active] 138119014192 catalytic nucleophile [active] 138119014193 Recombinase; Region: Recombinase; pfam07508 138119014194 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 138119014195 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 138119014196 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119014197 catalytic residues [active] 138119014198 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 138119014199 catalytic residues [active] 138119014200 catalytic nucleophile [active] 138119014201 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 138119014202 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 138119014203 Low molecular weight phosphatase family; Region: LMWPc; cl00105 138119014204 active site 138119014205 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 138119014206 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 138119014207 P loop; other site 138119014208 Nucleotide binding site [chemical binding]; other site 138119014209 DTAP/Switch II; other site 138119014210 Switch I; other site 138119014211 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 138119014212 P loop; other site 138119014213 Nucleotide binding site [chemical binding]; other site 138119014214 DTAP/Switch II; other site 138119014215 Switch I; other site 138119014216 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 138119014217 arsenical-resistance protein; Region: acr3; TIGR00832 138119014218 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 138119014219 dimerization interface [polypeptide binding]; other site 138119014220 putative DNA binding site [nucleotide binding]; other site 138119014221 putative Zn2+ binding site [ion binding]; other site 138119014222 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119014223 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014224 4Fe-4S binding domain; Region: Fer4; pfam00037 138119014225 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119014226 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119014227 putative [4Fe-4S] binding site [ion binding]; other site 138119014228 putative molybdopterin cofactor binding site [chemical binding]; other site 138119014229 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119014230 molybdopterin cofactor binding site; other site 138119014231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119014232 DNA-binding site [nucleotide binding]; DNA binding site 138119014233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 138119014234 FCD domain; Region: FCD; pfam07729 138119014235 Predicted permeases [General function prediction only]; Region: COG0701 138119014236 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 138119014237 dimerization interface [polypeptide binding]; other site 138119014238 putative DNA binding site [nucleotide binding]; other site 138119014239 putative Zn2+ binding site [ion binding]; other site 138119014240 Transposase, Mutator family; Region: Transposase_mut; pfam00872 138119014241 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119014242 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119014243 4Fe-4S binding domain; Region: Fer4; cl02805 138119014244 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119014245 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014246 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 138119014247 putative molybdopterin cofactor binding site; other site 138119014248 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119014249 Walker B motif; other site 138119014250 putative transposase OrfB; Reviewed; Region: PHA02517 138119014251 HTH-like domain; Region: HTH_21; pfam13276 138119014252 Integrase core domain; Region: rve; pfam00665 138119014253 Integrase core domain; Region: rve_3; pfam13683 138119014254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 138119014255 Transposase; Region: HTH_Tnp_1; cl17663 138119014256 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119014257 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119014258 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 138119014259 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014260 molybdopterin cofactor binding site; other site 138119014261 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014262 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119014263 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 138119014264 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014265 4Fe-4S binding domain; Region: Fer4; cl02805 138119014266 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 138119014267 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 138119014268 active site 138119014269 phosphorylation site [posttranslational modification] 138119014270 intermolecular recognition site; other site 138119014271 dimerization interface [polypeptide binding]; other site 138119014272 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 138119014273 dimerization interface [polypeptide binding]; other site 138119014274 DNA binding residues [nucleotide binding] 138119014275 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014276 dimerization interface [polypeptide binding]; other site 138119014277 PAS domain S-box; Region: sensory_box; TIGR00229 138119014278 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119014279 putative active site [active] 138119014280 heme pocket [chemical binding]; other site 138119014281 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 138119014282 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 138119014283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 138119014284 Histidine kinase; Region: HisKA_3; pfam07730 138119014285 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 138119014286 ATP binding site [chemical binding]; other site 138119014287 Mg2+ binding site [ion binding]; other site 138119014288 G-X-G motif; other site 138119014289 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 138119014290 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 138119014291 substrate binding pocket [chemical binding]; other site 138119014292 membrane-bound complex binding site; other site 138119014293 hinge residues; other site 138119014294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119014295 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014296 dimerization interface [polypeptide binding]; other site 138119014297 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 138119014298 dimer interface [polypeptide binding]; other site 138119014299 phosphorylation site [posttranslational modification] 138119014300 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 138119014301 ATP binding site [chemical binding]; other site 138119014302 Mg2+ binding site [ion binding]; other site 138119014303 G-X-G motif; other site 138119014304 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119014305 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 138119014306 active site 138119014307 phosphorylation site [posttranslational modification] 138119014308 intermolecular recognition site; other site 138119014309 dimerization interface [polypeptide binding]; other site 138119014310 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 138119014311 DNA binding site [nucleotide binding] 138119014312 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 138119014313 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119014314 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119014315 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119014316 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 138119014317 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119014318 Soluble P-type ATPase [General function prediction only]; Region: COG4087 138119014319 hypothetical protein; Provisional; Region: PRK02237 138119014320 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 138119014321 dimerization interface [polypeptide binding]; other site 138119014322 putative DNA binding site [nucleotide binding]; other site 138119014323 putative Zn2+ binding site [ion binding]; other site 138119014324 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 138119014325 Heavy-metal-associated domain; Region: HMA; pfam00403 138119014326 metal-binding site [ion binding] 138119014327 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 138119014328 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 138119014329 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 138119014330 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 138119014331 CHC2 zinc finger; Region: zf-CHC2; cl17510 138119014332 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 138119014333 Toprim-like; Region: Toprim_2; pfam13155 138119014334 active site 138119014335 metal binding site [ion binding]; metal-binding site 138119014336 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 138119014337 Sel1-like repeats; Region: SEL1; smart00671 138119014338 Sel1-like repeats; Region: SEL1; smart00671 138119014339 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 138119014340 Family description; Region: UvrD_C_2; pfam13538 138119014341 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 138119014342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119014343 Walker A/P-loop; other site 138119014344 ATP binding site [chemical binding]; other site 138119014345 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 138119014346 putative active site [active] 138119014347 putative metal-binding site [ion binding]; other site 138119014348 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 138119014349 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 138119014350 Mg binding site [ion binding]; other site 138119014351 nucleotide binding site [chemical binding]; other site 138119014352 putative protofilament interface [polypeptide binding]; other site 138119014353 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 138119014354 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 138119014355 putative active site pocket [active] 138119014356 dimerization interface [polypeptide binding]; other site 138119014357 putative catalytic residue [active] 138119014358 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 138119014359 AAA-like domain; Region: AAA_10; pfam12846 138119014360 Domain of unknown function DUF87; Region: DUF87; pfam01935 138119014361 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 138119014362 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 138119014363 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 138119014364 putative active site [active] 138119014365 putative NTP binding site [chemical binding]; other site 138119014366 putative nucleic acid binding site [nucleotide binding]; other site 138119014367 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 138119014368 Type II intron maturase; Region: Intron_maturas2; pfam01348 138119014369 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 138119014370 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 138119014371 Walker A motif; other site 138119014372 ATP binding site [chemical binding]; other site 138119014373 Walker B motif; other site 138119014374 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119014375 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 138119014376 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 138119014377 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 138119014378 S-layer homology domain; Region: SLH; pfam00395 138119014379 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 138119014380 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 138119014381 Low molecular weight phosphatase family; Region: LMWPc; cd00115 138119014382 active site 138119014383 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 138119014384 arsenical-resistance protein; Region: acr3; TIGR00832 138119014385 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 138119014386 putative DNA binding site [nucleotide binding]; other site 138119014387 dimerization interface [polypeptide binding]; other site 138119014388 putative Zn2+ binding site [ion binding]; other site 138119014389 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 138119014390 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 138119014391 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 138119014392 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 138119014393 catalytic residues [active] 138119014394 Ferredoxin [Energy production and conversion]; Region: COG1146 138119014395 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 138119014396 Predicted permeases [General function prediction only]; Region: COG0701 138119014397 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 138119014398 dimerization interface [polypeptide binding]; other site 138119014399 putative DNA binding site [nucleotide binding]; other site 138119014400 putative Zn2+ binding site [ion binding]; other site 138119014401 Uncharacterized conserved protein [Function unknown]; Region: COG4198 138119014402 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 138119014403 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 138119014404 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 138119014405 putative ligand binding site [chemical binding]; other site 138119014406 putative NAD binding site [chemical binding]; other site 138119014407 putative catalytic site [active] 138119014408 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 138119014409 L-serine binding site [chemical binding]; other site 138119014410 ACT domain interface; other site 138119014411 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 138119014412 homodimer interface [polypeptide binding]; other site 138119014413 substrate-cofactor binding pocket; other site 138119014414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119014415 catalytic residue [active] 138119014416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 138119014417 Homoserine O-succinyltransferase; Region: HTS; pfam04204 138119014418 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 138119014419 proposed active site lysine [active] 138119014420 conserved cys residue [active] 138119014421 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 138119014422 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 138119014423 substrate binding pocket [chemical binding]; other site 138119014424 membrane-bound complex binding site; other site 138119014425 hinge residues; other site 138119014426 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119014427 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119014428 Walker A/P-loop; other site 138119014429 ATP binding site [chemical binding]; other site 138119014430 Q-loop/lid; other site 138119014431 ABC transporter signature motif; other site 138119014432 Walker B; other site 138119014433 D-loop; other site 138119014434 H-loop/switch region; other site 138119014435 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 138119014436 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 138119014437 dimer interface [polypeptide binding]; other site 138119014438 conserved gate region; other site 138119014439 putative PBP binding loops; other site 138119014440 ABC-ATPase subunit interface; other site 138119014441 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 138119014442 dimer interface [polypeptide binding]; other site 138119014443 conserved gate region; other site 138119014444 putative PBP binding loops; other site 138119014445 ABC-ATPase subunit interface; other site 138119014446 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 138119014447 active site 138119014448 putative catalytic site [active] 138119014449 DNA binding site [nucleotide binding] 138119014450 putative phosphate binding site [ion binding]; other site 138119014451 metal binding site A [ion binding]; metal-binding site 138119014452 AP binding site [nucleotide binding]; other site 138119014453 metal binding site B [ion binding]; metal-binding site 138119014454 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119014455 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119014456 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 138119014457 active site 138119014458 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 138119014459 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 138119014460 CPxP motif; other site 138119014461 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 138119014462 selenophosphate synthetase; Provisional; Region: PRK00943 138119014463 dimerization interface [polypeptide binding]; other site 138119014464 putative ATP binding site [chemical binding]; other site 138119014465 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 138119014466 Cache domain; Region: Cache_1; pfam02743 138119014467 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014468 dimerization interface [polypeptide binding]; other site 138119014469 Histidine kinase; Region: His_kinase; pfam06580 138119014470 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 138119014471 ATP binding site [chemical binding]; other site 138119014472 Mg2+ binding site [ion binding]; other site 138119014473 G-X-G motif; other site 138119014474 Response regulator receiver domain; Region: Response_reg; pfam00072 138119014475 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 138119014476 active site 138119014477 phosphorylation site [posttranslational modification] 138119014478 intermolecular recognition site; other site 138119014479 dimerization interface [polypeptide binding]; other site 138119014480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119014481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119014482 methionine sulfoxide reductase A; Provisional; Region: PRK14054 138119014483 methionine sulfoxide reductase B; Provisional; Region: PRK00222 138119014484 SelR domain; Region: SelR; pfam01641 138119014485 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 138119014486 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 138119014487 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 138119014488 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119014489 B12 binding site [chemical binding]; other site 138119014490 cobalt ligand [ion binding]; other site 138119014491 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119014492 substrate binding pocket [chemical binding]; other site 138119014493 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119014494 dimer interface [polypeptide binding]; other site 138119014495 inhibitor binding site; inhibition site 138119014496 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 138119014497 active site residue [active] 138119014498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119014499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119014500 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119014501 dimerization interface [polypeptide binding]; other site 138119014502 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 138119014503 Ligand Binding Site [chemical binding]; other site 138119014504 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 138119014505 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119014506 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 138119014507 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 138119014508 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119014509 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014510 4Fe-4S binding domain; Region: Fer4; pfam00037 138119014511 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 138119014512 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 138119014513 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 138119014514 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119014515 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119014516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119014517 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119014518 active site 138119014519 CoA binding site [chemical binding]; other site 138119014520 AMP binding site [chemical binding]; other site 138119014521 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119014522 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119014523 putative [Fe4-S4] binding site [ion binding]; other site 138119014524 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119014525 putative molybdopterin cofactor binding site [chemical binding]; other site 138119014526 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119014527 putative molybdopterin cofactor binding site; other site 138119014528 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 138119014529 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 138119014530 Walker A motif; other site 138119014531 ATP binding site [chemical binding]; other site 138119014532 Walker B motif; other site 138119014533 arginine finger; other site 138119014534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119014535 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 138119014536 CoA-transferase family III; Region: CoA_transf_3; pfam02515 138119014537 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 138119014538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 138119014539 active site 138119014540 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 138119014541 Citrate transporter; Region: CitMHS; pfam03600 138119014542 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 138119014543 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 138119014544 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 138119014545 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 138119014546 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 138119014547 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 138119014548 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 138119014549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 138119014550 acyl-activating enzyme (AAE) consensus motif; other site 138119014551 AMP binding site [chemical binding]; other site 138119014552 active site 138119014553 CoA binding site [chemical binding]; other site 138119014554 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 138119014555 classical (c) SDRs; Region: SDR_c; cd05233 138119014556 NAD(P) binding site [chemical binding]; other site 138119014557 active site 138119014558 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 138119014559 phosphate binding site [ion binding]; other site 138119014560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119014561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119014562 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 138119014563 Cysteine-rich domain; Region: CCG; pfam02754 138119014564 Cysteine-rich domain; Region: CCG; pfam02754 138119014565 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 138119014566 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 138119014567 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 138119014568 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 138119014569 Ligand binding site [chemical binding]; other site 138119014570 Electron transfer flavoprotein domain; Region: ETF; pfam01012 138119014571 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 138119014572 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 138119014573 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 138119014574 benzoate transport; Region: 2A0115; TIGR00895 138119014575 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 138119014576 putative substrate translocation pore; other site 138119014577 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 138119014578 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 138119014579 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 138119014580 GatB domain; Region: GatB_Yqey; smart00845 138119014581 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 138119014582 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 138119014583 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 138119014584 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 138119014585 GAF domain; Region: GAF_3; pfam13492 138119014586 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 138119014587 dimer interface [polypeptide binding]; other site 138119014588 phosphorylation site [posttranslational modification] 138119014589 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 138119014590 ATP binding site [chemical binding]; other site 138119014591 Mg2+ binding site [ion binding]; other site 138119014592 G-X-G motif; other site 138119014593 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119014594 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 138119014595 active site 138119014596 phosphorylation site [posttranslational modification] 138119014597 intermolecular recognition site; other site 138119014598 dimerization interface [polypeptide binding]; other site 138119014599 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 138119014600 DNA binding site [nucleotide binding] 138119014601 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 138119014602 K+ potassium transporter; Region: K_trans; cl15781 138119014603 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119014604 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119014605 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119014606 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119014607 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119014608 Walker A/P-loop; other site 138119014609 ATP binding site [chemical binding]; other site 138119014610 Q-loop/lid; other site 138119014611 ABC transporter signature motif; other site 138119014612 Walker B; other site 138119014613 D-loop; other site 138119014614 H-loop/switch region; other site 138119014615 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119014616 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119014617 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 138119014618 Walker A/P-loop; other site 138119014619 ATP binding site [chemical binding]; other site 138119014620 Q-loop/lid; other site 138119014621 ABC transporter signature motif; other site 138119014622 Walker B; other site 138119014623 D-loop; other site 138119014624 H-loop/switch region; other site 138119014625 Domain of unknown function (DUF336); Region: DUF336; pfam03928 138119014626 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 138119014627 DctM-like transporters; Region: DctM; pfam06808 138119014628 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 138119014629 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119014630 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 138119014631 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 138119014632 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 138119014633 PYR/PP interface [polypeptide binding]; other site 138119014634 dimer interface [polypeptide binding]; other site 138119014635 TPP binding site [chemical binding]; other site 138119014636 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 138119014637 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 138119014638 TPP-binding site [chemical binding]; other site 138119014639 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 138119014640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119014641 DNA-binding site [nucleotide binding]; DNA binding site 138119014642 UTRA domain; Region: UTRA; pfam07702 138119014643 Propionate catabolism activator; Region: PrpR_N; pfam06506 138119014644 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119014645 putative CheW interface [polypeptide binding]; other site 138119014646 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119014647 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 138119014648 putative substrate translocation pore; other site 138119014649 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 138119014650 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 138119014651 putative substrate translocation pore; other site 138119014652 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119014653 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 138119014654 Walker A motif; other site 138119014655 ATP binding site [chemical binding]; other site 138119014656 Walker B motif; other site 138119014657 arginine finger; other site 138119014658 PAS fold; Region: PAS; pfam00989 138119014659 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119014660 putative active site [active] 138119014661 heme pocket [chemical binding]; other site 138119014662 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119014663 PAS domain; Region: PAS_9; pfam13426 138119014664 putative active site [active] 138119014665 heme pocket [chemical binding]; other site 138119014666 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119014667 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119014668 substrate binding pocket [chemical binding]; other site 138119014669 dimer interface [polypeptide binding]; other site 138119014670 inhibitor binding site; inhibition site 138119014671 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119014672 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119014673 B12 binding site [chemical binding]; other site 138119014674 cobalt ligand [ion binding]; other site 138119014675 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 138119014676 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 138119014677 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 138119014678 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 138119014679 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 138119014680 active site 138119014681 phosphorylation site [posttranslational modification] 138119014682 intermolecular recognition site; other site 138119014683 dimerization interface [polypeptide binding]; other site 138119014684 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 138119014685 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119014686 putative active site [active] 138119014687 heme pocket [chemical binding]; other site 138119014688 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 138119014689 ATP binding site [chemical binding]; other site 138119014690 Mg2+ binding site [ion binding]; other site 138119014691 G-X-G motif; other site 138119014692 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 138119014693 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 138119014694 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 138119014695 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 138119014696 DNA binding site [nucleotide binding] 138119014697 active site 138119014698 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 138119014699 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 138119014700 Walker A motif; other site 138119014701 ATP binding site [chemical binding]; other site 138119014702 Walker B motif; other site 138119014703 arginine finger; other site 138119014704 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119014705 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119014706 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119014707 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 138119014708 putative [Fe4-S4] binding site [ion binding]; other site 138119014709 putative molybdopterin cofactor binding site [chemical binding]; other site 138119014710 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 138119014711 putative molybdopterin cofactor binding site; other site 138119014712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119014713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119014714 EamA-like transporter family; Region: EamA; pfam00892 138119014715 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 138119014716 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 138119014717 putative substrate translocation pore; other site 138119014718 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119014719 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 138119014720 ligand binding site [chemical binding]; other site 138119014721 flexible hinge region; other site 138119014722 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 138119014723 putative switch regulator; other site 138119014724 non-specific DNA interactions [nucleotide binding]; other site 138119014725 DNA binding site [nucleotide binding] 138119014726 sequence specific DNA binding site [nucleotide binding]; other site 138119014727 putative cAMP binding site [chemical binding]; other site 138119014728 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119014729 dimer interface [polypeptide binding]; other site 138119014730 putative CheW interface [polypeptide binding]; other site 138119014731 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119014732 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 138119014733 active site 138119014734 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 138119014735 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 138119014736 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 138119014737 active site 138119014738 benzoate transport; Region: 2A0115; TIGR00895 138119014739 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 138119014740 putative substrate translocation pore; other site 138119014741 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 138119014742 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 138119014743 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 138119014744 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 138119014745 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 138119014746 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 138119014747 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 138119014748 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 138119014749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 138119014750 homodimer interface [polypeptide binding]; other site 138119014751 catalytic residue [active] 138119014752 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 138119014753 homotrimer interaction site [polypeptide binding]; other site 138119014754 putative active site [active] 138119014755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 138119014756 YheO-like PAS domain; Region: PAS_6; pfam08348 138119014757 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 138119014758 DNA-binding interface [nucleotide binding]; DNA binding site 138119014759 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 138119014760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 138119014761 putative substrate translocation pore; other site 138119014762 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014763 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119014764 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014765 molybdopterin cofactor binding site; other site 138119014766 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119014767 molybdopterin cofactor binding site; other site 138119014768 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 138119014769 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 138119014770 active site 138119014771 putative monooxygenase; Provisional; Region: PRK11118 138119014772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119014773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119014774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119014775 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 138119014776 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 138119014777 putative switch regulator; other site 138119014778 non-specific DNA interactions [nucleotide binding]; other site 138119014779 DNA binding site [nucleotide binding] 138119014780 sequence specific DNA binding site [nucleotide binding]; other site 138119014781 putative cAMP binding site [chemical binding]; other site 138119014782 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 138119014783 putative substrate translocation pore; other site 138119014784 Cache domain; Region: Cache_1; pfam02743 138119014785 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014786 dimerization interface [polypeptide binding]; other site 138119014787 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 138119014788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119014789 dimer interface [polypeptide binding]; other site 138119014790 putative CheW interface [polypeptide binding]; other site 138119014791 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119014792 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119014793 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 138119014794 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 138119014795 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 138119014796 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 138119014797 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 138119014798 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119014799 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 138119014800 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 138119014801 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 138119014802 metal binding site [ion binding]; metal-binding site 138119014803 active site 138119014804 I-site; other site 138119014805 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 138119014806 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 138119014807 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 138119014808 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014809 dimerization interface [polypeptide binding]; other site 138119014810 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119014811 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 138119014812 dimer interface [polypeptide binding]; other site 138119014813 phosphorylation site [posttranslational modification] 138119014814 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 138119014815 ATP binding site [chemical binding]; other site 138119014816 Mg2+ binding site [ion binding]; other site 138119014817 G-X-G motif; other site 138119014818 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 138119014819 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 138119014820 active site 138119014821 phosphorylation site [posttranslational modification] 138119014822 intermolecular recognition site; other site 138119014823 dimerization interface [polypeptide binding]; other site 138119014824 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 138119014825 Walker A motif; other site 138119014826 ATP binding site [chemical binding]; other site 138119014827 Walker B motif; other site 138119014828 arginine finger; other site 138119014829 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119014830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 138119014831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 138119014832 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 138119014833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 138119014834 Walker A/P-loop; other site 138119014835 ATP binding site [chemical binding]; other site 138119014836 Q-loop/lid; other site 138119014837 ABC transporter signature motif; other site 138119014838 Walker B; other site 138119014839 D-loop; other site 138119014840 H-loop/switch region; other site 138119014841 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 138119014842 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 138119014843 FtsX-like permease family; Region: FtsX; pfam02687 138119014844 FtsX-like permease family; Region: FtsX; pfam02687 138119014845 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 138119014846 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 138119014847 HlyD family secretion protein; Region: HlyD_3; pfam13437 138119014848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119014849 Walker A/P-loop; other site 138119014850 ATP binding site [chemical binding]; other site 138119014851 AAA domain; Region: AAA_21; pfam13304 138119014852 glycerol kinase; Provisional; Region: glpK; PRK00047 138119014853 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 138119014854 N- and C-terminal domain interface [polypeptide binding]; other site 138119014855 active site 138119014856 MgATP binding site [chemical binding]; other site 138119014857 catalytic site [active] 138119014858 metal binding site [ion binding]; metal-binding site 138119014859 glycerol binding site [chemical binding]; other site 138119014860 homotetramer interface [polypeptide binding]; other site 138119014861 homodimer interface [polypeptide binding]; other site 138119014862 FBP binding site [chemical binding]; other site 138119014863 protein IIAGlc interface [polypeptide binding]; other site 138119014864 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 138119014865 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; cd00688 138119014866 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 138119014867 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 138119014868 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 138119014869 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 138119014870 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 138119014871 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 138119014872 DNA binding site [nucleotide binding] 138119014873 active site 138119014874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 138119014875 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 138119014876 active site 138119014877 phosphorylation site [posttranslational modification] 138119014878 intermolecular recognition site; other site 138119014879 dimerization interface [polypeptide binding]; other site 138119014880 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 138119014881 DNA binding site [nucleotide binding] 138119014882 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 138119014883 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119014884 dimerization interface [polypeptide binding]; other site 138119014885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 138119014886 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 138119014887 dimer interface [polypeptide binding]; other site 138119014888 phosphorylation site [posttranslational modification] 138119014889 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 138119014890 ATP binding site [chemical binding]; other site 138119014891 Mg2+ binding site [ion binding]; other site 138119014892 G-X-G motif; other site 138119014893 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119014894 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014895 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014896 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119014897 putative molybdopterin cofactor binding site; other site 138119014898 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014899 molybdopterin cofactor binding site; other site 138119014900 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 138119014901 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 138119014902 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 138119014903 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 138119014904 molybdopterin cofactor binding site; other site 138119014905 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 138119014906 putative molybdopterin cofactor binding site; other site 138119014907 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 138119014908 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 138119014909 ABC1 family; Region: ABC1; pfam03109 138119014910 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 138119014911 active site 138119014912 ATP binding site [chemical binding]; other site 138119014913 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 138119014914 Divergent AAA domain; Region: AAA_4; pfam04326 138119014915 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 138119014916 MarR family; Region: MarR_2; cl17246 138119014917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 138119014918 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119014919 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 138119014920 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 138119014921 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 138119014922 SmpB-tmRNA interface; other site 138119014923 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 138119014924 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 138119014925 Preprotein translocase SecG subunit; Region: SecG; pfam03840 138119014926 enolase; Provisional; Region: eno; PRK00077 138119014927 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 138119014928 dimer interface [polypeptide binding]; other site 138119014929 metal binding site [ion binding]; metal-binding site 138119014930 substrate binding pocket [chemical binding]; other site 138119014931 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 138119014932 phosphoglyceromutase; Provisional; Region: PRK05434 138119014933 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 138119014934 triosephosphate isomerase; Provisional; Region: PRK14565 138119014935 substrate binding site [chemical binding]; other site 138119014936 dimer interface [polypeptide binding]; other site 138119014937 catalytic triad [active] 138119014938 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 138119014939 Phosphoglycerate kinase; Region: PGK; pfam00162 138119014940 substrate binding site [chemical binding]; other site 138119014941 hinge regions; other site 138119014942 ADP binding site [chemical binding]; other site 138119014943 catalytic site [active] 138119014944 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 138119014945 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 138119014946 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 138119014947 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 138119014948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 138119014949 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 138119014950 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 138119014951 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 138119014952 phosphate binding site [ion binding]; other site 138119014953 putative substrate binding pocket [chemical binding]; other site 138119014954 dimer interface [polypeptide binding]; other site 138119014955 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 138119014956 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 138119014957 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 138119014958 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 138119014959 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 138119014960 FeS/SAM binding site; other site 138119014961 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 138119014962 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119014963 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 138119014964 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119014965 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 138119014966 active site 138119014967 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 138119014968 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 138119014969 NodB motif; other site 138119014970 active site 138119014971 catalytic site [active] 138119014972 Zn binding site [ion binding]; other site 138119014973 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014974 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014975 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 138119014976 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 138119014977 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 138119014978 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 138119014979 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 138119014980 motif II; other site 138119014981 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 138119014982 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 138119014983 Predicted transcriptional regulators [Transcription]; Region: COG1725 138119014984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 138119014985 DNA-binding site [nucleotide binding]; DNA binding site 138119014986 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 138119014987 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 138119014988 Walker A/P-loop; other site 138119014989 ATP binding site [chemical binding]; other site 138119014990 Q-loop/lid; other site 138119014991 ABC transporter signature motif; other site 138119014992 Walker B; other site 138119014993 D-loop; other site 138119014994 H-loop/switch region; other site 138119014995 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 138119014996 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 138119014997 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 138119014998 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 138119014999 excinuclease ABC subunit B; Provisional; Region: PRK05298 138119015000 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 138119015001 ATP binding site [chemical binding]; other site 138119015002 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 138119015003 nucleotide binding region [chemical binding]; other site 138119015004 ATP-binding site [chemical binding]; other site 138119015005 Ultra-violet resistance protein B; Region: UvrB; pfam12344 138119015006 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 138119015007 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 138119015008 ligand binding site [chemical binding]; other site 138119015009 hypothetical protein; Provisional; Region: PRK06851 138119015010 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 138119015011 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 138119015012 Walker A motif; other site 138119015013 ATP binding site [chemical binding]; other site 138119015014 Walker B motif; other site 138119015015 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 138119015016 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 138119015017 C-terminal peptidase (prc); Region: prc; TIGR00225 138119015018 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 138119015019 protein binding site [polypeptide binding]; other site 138119015020 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 138119015021 Catalytic dyad [active] 138119015022 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 138119015023 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119015024 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 138119015025 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 138119015026 FtsX-like permease family; Region: FtsX; pfam02687 138119015027 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 138119015028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119015029 Walker A/P-loop; other site 138119015030 ATP binding site [chemical binding]; other site 138119015031 Q-loop/lid; other site 138119015032 ABC transporter signature motif; other site 138119015033 Walker B; other site 138119015034 D-loop; other site 138119015035 H-loop/switch region; other site 138119015036 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 138119015037 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 138119015038 PYR/PP interface [polypeptide binding]; other site 138119015039 dimer interface [polypeptide binding]; other site 138119015040 TPP binding site [chemical binding]; other site 138119015041 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 138119015042 transketolase; Reviewed; Region: PRK05899 138119015043 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 138119015044 TPP-binding site [chemical binding]; other site 138119015045 dimer interface [polypeptide binding]; other site 138119015046 This domain is found in peptide chain release factors; Region: PCRF; smart00937 138119015047 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 138119015048 RF-1 domain; Region: RF-1; pfam00472 138119015049 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 138119015050 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 138119015051 ATP binding site [chemical binding]; other site 138119015052 putative Mg++ binding site [ion binding]; other site 138119015053 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 138119015054 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 138119015055 nucleotide binding region [chemical binding]; other site 138119015056 ATP-binding site [chemical binding]; other site 138119015057 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 138119015058 30S subunit binding site; other site 138119015059 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 138119015060 DNA-binding site [nucleotide binding]; DNA binding site 138119015061 RNA-binding motif; other site 138119015062 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 138119015063 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 138119015064 Walker A/P-loop; other site 138119015065 ATP binding site [chemical binding]; other site 138119015066 Q-loop/lid; other site 138119015067 ABC transporter signature motif; other site 138119015068 Walker B; other site 138119015069 D-loop; other site 138119015070 H-loop/switch region; other site 138119015071 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 138119015072 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 138119015073 dimer interface [polypeptide binding]; other site 138119015074 conserved gate region; other site 138119015075 putative PBP binding loops; other site 138119015076 ABC-ATPase subunit interface; other site 138119015077 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 138119015078 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 138119015079 substrate binding pocket [chemical binding]; other site 138119015080 membrane-bound complex binding site; other site 138119015081 hinge residues; other site 138119015082 Probable zinc-binding domain; Region: zf-trcl; pfam13451 138119015083 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 138119015084 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 138119015085 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119015086 active site 138119015087 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 138119015088 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 138119015089 ATP binding site [chemical binding]; other site 138119015090 putative Mg++ binding site [ion binding]; other site 138119015091 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 138119015092 nucleotide binding region [chemical binding]; other site 138119015093 ATP-binding site [chemical binding]; other site 138119015094 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 138119015095 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 138119015096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 138119015097 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 138119015098 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 138119015099 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 138119015100 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 138119015101 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 138119015102 rod shape-determining protein Mbl; Provisional; Region: PRK13928 138119015103 MreB and similar proteins; Region: MreB_like; cd10225 138119015104 nucleotide binding site [chemical binding]; other site 138119015105 Mg binding site [ion binding]; other site 138119015106 putative protofilament interaction site [polypeptide binding]; other site 138119015107 RodZ interaction site [polypeptide binding]; other site 138119015108 Stage III sporulation protein D; Region: SpoIIID; pfam12116 138119015109 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 138119015110 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 138119015111 dimer interface [polypeptide binding]; other site 138119015112 PYR/PP interface [polypeptide binding]; other site 138119015113 TPP binding site [chemical binding]; other site 138119015114 substrate binding site [chemical binding]; other site 138119015115 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 138119015116 Domain of unknown function; Region: EKR; smart00890 138119015117 4Fe-4S binding domain; Region: Fer4_6; pfam12837 138119015118 4Fe-4S binding domain; Region: Fer4; pfam00037 138119015119 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 138119015120 TPP-binding site [chemical binding]; other site 138119015121 dimer interface [polypeptide binding]; other site 138119015122 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 138119015123 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 138119015124 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119015125 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119015126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119015127 Walker A/P-loop; other site 138119015128 ATP binding site [chemical binding]; other site 138119015129 Q-loop/lid; other site 138119015130 ABC transporter signature motif; other site 138119015131 Walker B; other site 138119015132 D-loop; other site 138119015133 H-loop/switch region; other site 138119015134 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 138119015135 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 138119015136 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 138119015137 Walker A/P-loop; other site 138119015138 ATP binding site [chemical binding]; other site 138119015139 Q-loop/lid; other site 138119015140 ABC transporter signature motif; other site 138119015141 Walker B; other site 138119015142 D-loop; other site 138119015143 H-loop/switch region; other site 138119015144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 138119015145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 138119015146 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119015147 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 138119015148 Walker A/P-loop; other site 138119015149 ATP binding site [chemical binding]; other site 138119015150 Q-loop/lid; other site 138119015151 ABC transporter signature motif; other site 138119015152 Walker B; other site 138119015153 D-loop; other site 138119015154 H-loop/switch region; other site 138119015155 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 138119015156 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 138119015157 Walker A/P-loop; other site 138119015158 ATP binding site [chemical binding]; other site 138119015159 Q-loop/lid; other site 138119015160 ABC transporter signature motif; other site 138119015161 Walker B; other site 138119015162 D-loop; other site 138119015163 H-loop/switch region; other site 138119015164 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 138119015165 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 138119015166 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 138119015167 Ligand Binding Site [chemical binding]; other site 138119015168 HPP family; Region: HPP; pfam04982 138119015169 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119015170 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119015171 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 138119015172 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 138119015173 active site 138119015174 phosphorylation site [posttranslational modification] 138119015175 intermolecular recognition site; other site 138119015176 dimerization interface [polypeptide binding]; other site 138119015177 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 138119015178 Walker A motif; other site 138119015179 ATP binding site [chemical binding]; other site 138119015180 Walker B motif; other site 138119015181 arginine finger; other site 138119015182 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 138119015183 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119015184 dimerization interface [polypeptide binding]; other site 138119015185 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 138119015186 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 138119015187 dimer interface [polypeptide binding]; other site 138119015188 phosphorylation site [posttranslational modification] 138119015189 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 138119015190 ATP binding site [chemical binding]; other site 138119015191 Mg2+ binding site [ion binding]; other site 138119015192 G-X-G motif; other site 138119015193 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 138119015194 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 138119015195 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 138119015196 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 138119015197 4Fe-4S binding domain; Region: Fer4; pfam00037 138119015198 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 138119015199 tetrathionate reductase subunit A; Provisional; Region: PRK14991 138119015200 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 138119015201 putative [Fe4-S4] binding site [ion binding]; other site 138119015202 putative molybdopterin cofactor binding site [chemical binding]; other site 138119015203 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 138119015204 putative molybdopterin cofactor binding site; other site 138119015205 DNA topoisomerase III; Provisional; Region: PRK07726 138119015206 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 138119015207 active site 138119015208 putative interdomain interaction site [polypeptide binding]; other site 138119015209 putative metal-binding site [ion binding]; other site 138119015210 putative nucleotide binding site [chemical binding]; other site 138119015211 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 138119015212 domain I; other site 138119015213 DNA binding groove [nucleotide binding] 138119015214 phosphate binding site [ion binding]; other site 138119015215 domain II; other site 138119015216 domain III; other site 138119015217 nucleotide binding site [chemical binding]; other site 138119015218 catalytic site [active] 138119015219 domain IV; other site 138119015220 Stage II sporulation protein; Region: SpoIID; pfam08486 138119015221 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 138119015222 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 138119015223 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 138119015224 hinge; other site 138119015225 active site 138119015226 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 138119015227 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 138119015228 gamma subunit interface [polypeptide binding]; other site 138119015229 epsilon subunit interface [polypeptide binding]; other site 138119015230 LBP interface [polypeptide binding]; other site 138119015231 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 138119015232 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 138119015233 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 138119015234 alpha subunit interaction interface [polypeptide binding]; other site 138119015235 Walker A motif; other site 138119015236 ATP binding site [chemical binding]; other site 138119015237 Walker B motif; other site 138119015238 inhibitor binding site; inhibition site 138119015239 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 138119015240 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 138119015241 core domain interface [polypeptide binding]; other site 138119015242 delta subunit interface [polypeptide binding]; other site 138119015243 epsilon subunit interface [polypeptide binding]; other site 138119015244 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 138119015245 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 138119015246 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 138119015247 beta subunit interaction interface [polypeptide binding]; other site 138119015248 Walker A motif; other site 138119015249 ATP binding site [chemical binding]; other site 138119015250 Walker B motif; other site 138119015251 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 138119015252 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 138119015253 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 138119015254 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 138119015255 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 138119015256 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 138119015257 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 138119015258 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 138119015259 Domain of unknown function (DUF955); Region: DUF955; pfam06114 138119015260 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 138119015261 amidase catalytic site [active] 138119015262 Zn binding residues [ion binding]; other site 138119015263 substrate binding site [chemical binding]; other site 138119015264 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 138119015265 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 138119015266 active site 138119015267 homodimer interface [polypeptide binding]; other site 138119015268 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 138119015269 catalytic motif [active] 138119015270 Zn binding site [ion binding]; other site 138119015271 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 138119015272 active site 138119015273 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 138119015274 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 138119015275 dimer interface [polypeptide binding]; other site 138119015276 active site 138119015277 glycine-pyridoxal phosphate binding site [chemical binding]; other site 138119015278 folate binding site [chemical binding]; other site 138119015279 hypothetical protein; Provisional; Region: PRK13690 138119015280 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 138119015281 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 138119015282 Low molecular weight phosphatase family; Region: LMWPc; cd00115 138119015283 active site 138119015284 Domain of unknown function DUF; Region: DUF204; pfam02659 138119015285 Domain of unknown function DUF; Region: DUF204; pfam02659 138119015286 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 138119015287 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 138119015288 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 138119015289 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 138119015290 S-adenosylmethionine binding site [chemical binding]; other site 138119015291 peptide chain release factor 1; Validated; Region: prfA; PRK00591 138119015292 This domain is found in peptide chain release factors; Region: PCRF; smart00937 138119015293 RF-1 domain; Region: RF-1; pfam00472 138119015294 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 138119015295 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 138119015296 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 138119015297 Peptidase family M23; Region: Peptidase_M23; pfam01551 138119015298 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 138119015299 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 138119015300 putative active site [active] 138119015301 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 138119015302 active site 138119015303 intersubunit interactions; other site 138119015304 catalytic residue [active] 138119015305 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 138119015306 intersubunit interface [polypeptide binding]; other site 138119015307 active site 138119015308 zinc binding site [ion binding]; other site 138119015309 Na+ binding site [ion binding]; other site 138119015310 Response regulator receiver domain; Region: Response_reg; pfam00072 138119015311 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 138119015312 active site 138119015313 phosphorylation site [posttranslational modification] 138119015314 intermolecular recognition site; other site 138119015315 dimerization interface [polypeptide binding]; other site 138119015316 alanine racemase; Reviewed; Region: alr; PRK00053 138119015317 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 138119015318 active site 138119015319 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 138119015320 dimer interface [polypeptide binding]; other site 138119015321 substrate binding site [chemical binding]; other site 138119015322 catalytic residues [active] 138119015323 FemAB family; Region: FemAB; pfam02388 138119015324 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 138119015325 CTP synthetase; Validated; Region: pyrG; PRK05380 138119015326 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 138119015327 Catalytic site [active] 138119015328 active site 138119015329 UTP binding site [chemical binding]; other site 138119015330 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 138119015331 active site 138119015332 putative oxyanion hole; other site 138119015333 catalytic triad [active] 138119015334 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 138119015335 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 138119015336 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 138119015337 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 138119015338 active site 138119015339 HIGH motif; other site 138119015340 KMSK motif region; other site 138119015341 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 138119015342 tRNA binding surface [nucleotide binding]; other site 138119015343 anticodon binding site; other site 138119015344 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 138119015345 germination protein YpeB; Region: spore_YpeB; TIGR02889 138119015346 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 138119015347 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 138119015348 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 138119015349 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 138119015350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 138119015351 catalytic residue [active] 138119015352 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 138119015353 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 138119015354 putative dimer interface [polypeptide binding]; other site 138119015355 putative anticodon binding site; other site 138119015356 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 138119015357 homodimer interface [polypeptide binding]; other site 138119015358 motif 1; other site 138119015359 motif 2; other site 138119015360 active site 138119015361 motif 3; other site 138119015362 glutamate dehydrogenase; Provisional; Region: PRK09414 138119015363 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 138119015364 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 138119015365 NAD(P) binding site [chemical binding]; other site 138119015366 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 138119015367 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 138119015368 pyrrolysine biosynthesis protein PylD; Region: pyrrolys_PylD; TIGR03911 138119015369 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 138119015370 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 138119015371 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 138119015372 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 138119015373 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 138119015374 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 138119015375 FeS/SAM binding site; other site 138119015376 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 138119015377 pyrrolysyl-tRNA synthetase, C-terminal region; Region: PylS_Cterm; TIGR02367 138119015378 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 138119015379 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 138119015380 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 138119015381 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 138119015382 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 138119015383 Hexamer/Pentamer interface [polypeptide binding]; other site 138119015384 central pore; other site 138119015385 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 138119015386 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 138119015387 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 138119015388 putative hexamer interface [polypeptide binding]; other site 138119015389 putative hexagonal pore; other site 138119015390 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 138119015391 putative hexamer interface [polypeptide binding]; other site 138119015392 putative hexagonal pore; other site 138119015393 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 138119015394 G1 box; other site 138119015395 GTP/Mg2+ binding site [chemical binding]; other site 138119015396 G2 box; other site 138119015397 Switch I region; other site 138119015398 G3 box; other site 138119015399 Switch II region; other site 138119015400 G4 box; other site 138119015401 G5 box; other site 138119015402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119015403 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119015404 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119015405 dimerization interface [polypeptide binding]; other site 138119015406 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119015407 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119015408 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 138119015409 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 138119015410 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 138119015411 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 138119015412 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 138119015413 substrate binding pocket [chemical binding]; other site 138119015414 dimer interface [polypeptide binding]; other site 138119015415 inhibitor binding site; inhibition site 138119015416 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 138119015417 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 138119015418 B12 binding site [chemical binding]; other site 138119015419 cobalt ligand [ion binding]; other site 138119015420 PAS domain; Region: PAS_9; pfam13426 138119015421 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 138119015422 putative active site [active] 138119015423 heme pocket [chemical binding]; other site 138119015424 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119015425 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 138119015426 Walker A motif; other site 138119015427 ATP binding site [chemical binding]; other site 138119015428 Walker B motif; other site 138119015429 arginine finger; other site 138119015430 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 138119015431 AAA domain; Region: AAA_14; pfam13173 138119015432 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 138119015433 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 138119015434 active site 138119015435 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 138119015436 substrate binding site [chemical binding]; other site 138119015437 catalytic residues [active] 138119015438 dimer interface [polypeptide binding]; other site 138119015439 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 138119015440 putative deacylase active site [active] 138119015441 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 138119015442 Uncharacterized conserved protein [Function unknown]; Region: COG1915 138119015443 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 138119015444 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 138119015445 active site 138119015446 HIGH motif; other site 138119015447 nucleotide binding site [chemical binding]; other site 138119015448 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 138119015449 KMSKS motif; other site 138119015450 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 138119015451 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 138119015452 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 138119015453 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 138119015454 amino acid carrier protein; Region: agcS; TIGR00835 138119015455 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 138119015456 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 138119015457 dimer interface [polypeptide binding]; other site 138119015458 active site 138119015459 metal binding site [ion binding]; metal-binding site 138119015460 glutathione binding site [chemical binding]; other site 138119015461 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 138119015462 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 138119015463 Cache domain; Region: Cache_1; pfam02743 138119015464 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 138119015465 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 138119015466 dimerization interface [polypeptide binding]; other site 138119015467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 138119015468 dimer interface [polypeptide binding]; other site 138119015469 putative CheW interface [polypeptide binding]; other site 138119015470 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 138119015471 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 138119015472 catalytic residues [active] 138119015473 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119015474 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 138119015475 Hexamer interface [polypeptide binding]; other site 138119015476 Putative hexagonal pore residue; other site 138119015477 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 138119015478 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119015479 Propanediol utilisation protein PduL; Region: PduL; pfam06130 138119015480 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 138119015481 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 138119015482 putative catalytic cysteine [active] 138119015483 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119015484 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 138119015485 Hexamer interface [polypeptide binding]; other site 138119015486 Hexagonal pore residue; other site 138119015487 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 138119015488 Ethanolamine utilisation protein EutQ; Region: EutQ; pfam06249 138119015489 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 138119015490 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 138119015491 putative hexamer interface [polypeptide binding]; other site 138119015492 putative hexagonal pore; other site 138119015493 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 138119015494 putative hexamer interface [polypeptide binding]; other site 138119015495 putative hexagonal pore; other site 138119015496 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 138119015497 SLBB domain; Region: SLBB; pfam10531 138119015498 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 138119015499 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 138119015500 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 138119015501 Hexamer/Pentamer interface [polypeptide binding]; other site 138119015502 central pore; other site 138119015503 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 138119015504 Hexamer interface [polypeptide binding]; other site 138119015505 Hexagonal pore residue; other site 138119015506 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 138119015507 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 138119015508 nucleotide binding site [chemical binding]; other site 138119015509 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 138119015510 nucleotide binding site [chemical binding]; other site 138119015511 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 138119015512 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 138119015513 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 138119015514 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 138119015515 G1 box; other site 138119015516 GTP/Mg2+ binding site [chemical binding]; other site 138119015517 G2 box; other site 138119015518 Switch I region; other site 138119015519 G3 box; other site 138119015520 Switch II region; other site 138119015521 G4 box; other site 138119015522 G5 box; other site 138119015523 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 138119015524 putative hexamer interface [polypeptide binding]; other site 138119015525 putative hexagonal pore; other site 138119015526 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 138119015527 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 138119015528 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 138119015529 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 138119015530 dimer interface [polypeptide binding]; other site 138119015531 active site 138119015532 glycine loop; other site 138119015533 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 138119015534 putative catalytic cysteine [active] 138119015535 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119015536 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 138119015537 Hexamer interface [polypeptide binding]; other site 138119015538 Hexagonal pore residue; other site 138119015539 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 138119015540 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 138119015541 Hexamer interface [polypeptide binding]; other site 138119015542 Hexagonal pore residue; other site 138119015543 BCCT family transporter; Region: BCCT; pfam02028 138119015544 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119015545 Uncharacterized conserved protein [Function unknown]; Region: COG3379 138119015546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119015547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119015548 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119015549 dimerization interface [polypeptide binding]; other site 138119015550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 138119015551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 138119015552 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 138119015553 dimerization interface [polypeptide binding]; other site 138119015554 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 138119015555 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 138119015556 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 138119015557 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 138119015558 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 138119015559 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 138119015560 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 138119015561 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 138119015562 TPR motif; other site 138119015563 TPR repeat; Region: TPR_11; pfam13414 138119015564 binding surface 138119015565 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 138119015566 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 138119015567 putative [4Fe-4S] binding site [ion binding]; other site 138119015568 putative molybdopterin cofactor binding site [chemical binding]; other site 138119015569 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 138119015570 molybdopterin cofactor binding site; other site 138119015571 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 138119015572 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 138119015573 FeS/SAM binding site; other site 138119015574 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 138119015575 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 138119015576 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 138119015577 Walker A/P-loop; other site 138119015578 ATP binding site [chemical binding]; other site 138119015579 Q-loop/lid; other site 138119015580 ABC transporter signature motif; other site 138119015581 Walker B; other site 138119015582 D-loop; other site 138119015583 H-loop/switch region; other site 138119015584 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 138119015585 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 138119015586 Walker A/P-loop; other site 138119015587 ATP binding site [chemical binding]; other site 138119015588 Q-loop/lid; other site 138119015589 ABC transporter signature motif; other site 138119015590 Walker B; other site 138119015591 D-loop; other site 138119015592 H-loop/switch region; other site 138119015593 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 138119015594 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119015595 TM-ABC transporter signature motif; other site 138119015596 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 138119015597 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 138119015598 TM-ABC transporter signature motif; other site 138119015599 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 138119015600 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 138119015601 putative ligand binding site [chemical binding]; other site 138119015602 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 138119015603 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 138119015604 GDP-binding site [chemical binding]; other site 138119015605 ACT binding site; other site 138119015606 IMP binding site; other site 138119015607 adenylosuccinate lyase; Provisional; Region: PRK07380 138119015608 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 138119015609 tetramer interface [polypeptide binding]; other site 138119015610 active site 138119015611 replicative DNA helicase; Region: DnaB; TIGR00665 138119015612 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 138119015613 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 138119015614 Walker A motif; other site 138119015615 ATP binding site [chemical binding]; other site 138119015616 Walker B motif; other site 138119015617 DNA binding loops [nucleotide binding] 138119015618 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 138119015619 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 138119015620 Walker A motif; other site 138119015621 ATP binding site [chemical binding]; other site 138119015622 Walker B motif; other site 138119015623 arginine finger; other site 138119015624 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 138119015625 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 138119015626 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 138119015627 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 138119015628 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 138119015629 MazG-like family; Region: MazG-like; pfam12643 138119015630 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 138119015631 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 138119015632 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 138119015633 dimer interface [polypeptide binding]; other site 138119015634 ssDNA binding site [nucleotide binding]; other site 138119015635 tetramer (dimer of dimers) interface [polypeptide binding]; other site 138119015636 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 138119015637 GTP-binding protein YchF; Reviewed; Region: PRK09601 138119015638 YchF GTPase; Region: YchF; cd01900 138119015639 G1 box; other site 138119015640 GTP/Mg2+ binding site [chemical binding]; other site 138119015641 Switch I region; other site 138119015642 G2 box; other site 138119015643 Switch II region; other site 138119015644 G3 box; other site 138119015645 G4 box; other site 138119015646 G5 box; other site 138119015647 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 138119015648 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 138119015649 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 138119015650 FOG: CBS domain [General function prediction only]; Region: COG0517 138119015651 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 138119015652 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 138119015653 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 138119015654 binding surface 138119015655 TPR motif; other site 138119015656 TPR repeat; Region: TPR_11; pfam13414 138119015657 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 138119015658 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 138119015659 G1 box; other site 138119015660 GTP/Mg2+ binding site [chemical binding]; other site 138119015661 G2 box; other site 138119015662 Switch I region; other site 138119015663 G3 box; other site 138119015664 Switch II region; other site 138119015665 G4 box; other site 138119015666 G5 box; other site 138119015667 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK03824 138119015668 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 138119015669 Uncharacterized membrane protein [Function unknown]; Region: COG3949 138119015670 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 138119015671 HipA-like C-terminal domain; Region: HipA_C; pfam07804 138119015672 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 138119015673 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 138119015674 Protein of unknown function (DUF554); Region: DUF554; pfam04474 138119015675 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 138119015676 ParB-like nuclease domain; Region: ParB; smart00470 138119015677 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 138119015678 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 138119015679 P-loop; other site 138119015680 Magnesium ion binding site [ion binding]; other site 138119015681 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 138119015682 Magnesium ion binding site [ion binding]; other site 138119015683 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 138119015684 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 138119015685 S-adenosylmethionine binding site [chemical binding]; other site 138119015686 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 138119015687 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 138119015688 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 138119015689 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 138119015690 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 138119015691 trmE is a tRNA modification GTPase; Region: trmE; cd04164 138119015692 G1 box; other site 138119015693 GTP/Mg2+ binding site [chemical binding]; other site 138119015694 Switch I region; other site 138119015695 G2 box; other site 138119015696 Switch II region; other site 138119015697 G3 box; other site 138119015698 G4 box; other site 138119015699 G5 box; other site 138119015700 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 138119015701 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 138119015702 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 138119015703 G-X-X-G motif; other site 138119015704 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 138119015705 RxxxH motif; other site 138119015706 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 138119015707 Haemolytic domain; Region: Haemolytic; pfam01809 138119015708 ribonuclease P; Reviewed; Region: rnpA; PRK00499 138119015709 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399