-- dump date 20140620_023656 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1031711000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1031711000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1031711000003 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 1031711000004 Walker A motif; other site 1031711000005 ATP binding site [chemical binding]; other site 1031711000006 Walker B motif; other site 1031711000007 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 1031711000008 arginine finger; other site 1031711000009 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 1031711000010 DnaA box-binding interface [nucleotide binding]; other site 1031711000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1031711000012 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 1031711000013 putative DNA binding surface [nucleotide binding]; other site 1031711000014 dimer interface [polypeptide binding]; other site 1031711000015 beta-clamp/clamp loader binding surface; other site 1031711000016 beta-clamp/translesion DNA polymerase binding surface; other site 1031711000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1031711000018 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 1031711000019 ATP binding site [chemical binding]; other site 1031711000020 Mg2+ binding site [ion binding]; other site 1031711000021 G-X-G motif; other site 1031711000022 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 1031711000023 anchoring element; other site 1031711000024 dimer interface [polypeptide binding]; other site 1031711000025 ATP binding site [chemical binding]; other site 1031711000026 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 1031711000027 active site 1031711000028 putative metal-binding site [ion binding]; other site 1031711000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1031711000030 HNH endonuclease; Region: HNH_2; pfam13391 1031711000031 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 1031711000032 active site 1031711000033 NTP binding site [chemical binding]; other site 1031711000034 metal binding triad [ion binding]; metal-binding site 1031711000035 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; cd01483 1031711000036 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1031711000037 ATP binding site [chemical binding]; other site 1031711000038 substrate interface [chemical binding]; other site 1031711000039 Protein similar to CwfJ C-terminus 1; Region: CwfJ_C_1; pfam04677 1031711000040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711000041 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711000042 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711000043 Uncharacterized conserved protein [Function unknown]; Region: COG5435 1031711000044 PAAR motif; Region: PAAR_motif; pfam05488 1031711000045 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1031711000046 HD domain; Region: HD_4; pfam13328 1031711000047 Restriction endonuclease; Region: Mrr_cat; pfam04471 1031711000048 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1031711000049 Predicted membrane protein [Function unknown]; Region: COG3781 1031711000050 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711000051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711000052 dimer interface [polypeptide binding]; other site 1031711000053 putative CheW interface [polypeptide binding]; other site 1031711000054 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711000055 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711000056 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711000057 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 1031711000058 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711000059 substrate binding pocket [chemical binding]; other site 1031711000060 membrane-bound complex binding site; other site 1031711000061 hinge residues; other site 1031711000062 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1031711000063 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 1031711000064 dimer interface [polypeptide binding]; other site 1031711000065 conserved gate region; other site 1031711000066 putative PBP binding loops; other site 1031711000067 ABC-ATPase subunit interface; other site 1031711000068 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1031711000069 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1031711000070 Walker A/P-loop; other site 1031711000071 ATP binding site [chemical binding]; other site 1031711000072 Q-loop/lid; other site 1031711000073 ABC transporter signature motif; other site 1031711000074 Walker B; other site 1031711000075 D-loop; other site 1031711000076 H-loop/switch region; other site 1031711000077 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1031711000078 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1031711000079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711000080 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1031711000081 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711000082 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711000083 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711000084 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711000085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711000086 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 1031711000087 active site 1031711000088 phosphorylation site [posttranslational modification] 1031711000089 intermolecular recognition site; other site 1031711000090 dimerization interface [polypeptide binding]; other site 1031711000091 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 1031711000092 DNA binding site [nucleotide binding] 1031711000093 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711000094 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 1031711000095 dimer interface [polypeptide binding]; other site 1031711000096 phosphorylation site [posttranslational modification] 1031711000097 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 1031711000098 ATP binding site [chemical binding]; other site 1031711000099 Mg2+ binding site [ion binding]; other site 1031711000100 G-X-G motif; other site 1031711000101 CAAX protease self-immunity; Region: Abi; pfam02517 1031711000102 hypothetical protein; Validated; Region: PRK09169 1031711000103 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711000104 metal binding triad [ion binding]; metal-binding site 1031711000105 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1031711000106 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 1031711000107 putative substrate translocation pore; other site 1031711000108 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1031711000109 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1031711000110 heme-binding site [chemical binding]; other site 1031711000111 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1031711000112 FAD binding pocket [chemical binding]; other site 1031711000113 FAD binding motif [chemical binding]; other site 1031711000114 phosphate binding motif [ion binding]; other site 1031711000115 beta-alpha-beta structure motif; other site 1031711000116 NAD binding pocket [chemical binding]; other site 1031711000117 Heme binding pocket [chemical binding]; other site 1031711000118 Transcriptional regulator; Region: Rrf2; cl17282 1031711000119 Rrf2 family protein; Region: rrf2_super; TIGR00738 1031711000120 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1031711000121 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1031711000122 potential frameshift: common BLAST hit: gi|300702439|ref|YP_003744039.1| restriction endonuclease, type I, r subunit (hsdr) 1031711000123 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1031711000124 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1031711000125 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1031711000126 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1031711000127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711000128 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 1031711000129 dimer interface [polypeptide binding]; other site 1031711000130 phosphorylation site [posttranslational modification] 1031711000131 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 1031711000132 ATP binding site [chemical binding]; other site 1031711000133 Mg2+ binding site [ion binding]; other site 1031711000134 G-X-G motif; other site 1031711000135 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1031711000136 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 1031711000137 active site 1031711000138 phosphorylation site [posttranslational modification] 1031711000139 intermolecular recognition site; other site 1031711000140 dimerization interface [polypeptide binding]; other site 1031711000141 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 1031711000142 DNA binding site [nucleotide binding] 1031711000143 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1031711000144 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 1031711000145 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711000146 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711000147 eyelet of channel; other site 1031711000148 trimer interface [polypeptide binding]; other site 1031711000149 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 1031711000150 CoenzymeA binding site [chemical binding]; other site 1031711000151 subunit interaction site [polypeptide binding]; other site 1031711000152 PHB binding site; other site 1031711000153 Isochorismatase family; Region: Isochorismatase; pfam00857 1031711000154 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 1031711000155 catalytic triad [active] 1031711000156 conserved cis-peptide bond; other site 1031711000157 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711000158 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 1031711000159 active site 1031711000160 phosphorylation site [posttranslational modification] 1031711000161 intermolecular recognition site; other site 1031711000162 dimerization interface [polypeptide binding]; other site 1031711000163 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 1031711000164 DNA binding residues [nucleotide binding] 1031711000165 dimerization interface [polypeptide binding]; other site 1031711000166 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711000167 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 1031711000168 active site 1031711000169 phosphorylation site [posttranslational modification] 1031711000170 intermolecular recognition site; other site 1031711000171 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 1031711000172 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1031711000173 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1031711000174 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1031711000175 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1031711000176 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 1031711000177 Ligand Binding Site [chemical binding]; other site 1031711000178 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1031711000179 GAF domain; Region: GAF_3; pfam13492 1031711000180 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 1031711000181 dimer interface [polypeptide binding]; other site 1031711000182 phosphorylation site [posttranslational modification] 1031711000183 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 1031711000184 ATP binding site [chemical binding]; other site 1031711000185 Mg2+ binding site [ion binding]; other site 1031711000186 G-X-G motif; other site 1031711000187 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1031711000188 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1031711000189 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1031711000190 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1031711000191 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1031711000192 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1031711000193 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1031711000194 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711000195 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 1031711000196 DNA binding residues [nucleotide binding] 1031711000197 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1031711000198 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1031711000199 Walker A/P-loop; other site 1031711000200 ATP binding site [chemical binding]; other site 1031711000201 Q-loop/lid; other site 1031711000202 ABC transporter signature motif; other site 1031711000203 Walker B; other site 1031711000204 D-loop; other site 1031711000205 H-loop/switch region; other site 1031711000206 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 1031711000207 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1031711000208 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 1031711000209 dimer interface [polypeptide binding]; other site 1031711000210 conserved gate region; other site 1031711000211 putative PBP binding loops; other site 1031711000212 ABC-ATPase subunit interface; other site 1031711000213 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 1031711000214 dimer interface [polypeptide binding]; other site 1031711000215 conserved gate region; other site 1031711000216 putative PBP binding loops; other site 1031711000217 ABC-ATPase subunit interface; other site 1031711000218 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 1031711000219 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1031711000220 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1031711000221 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711000222 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1031711000223 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1031711000224 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 1031711000225 Switch I; other site 1031711000226 Switch II; other site 1031711000227 septum formation inhibitor; Reviewed; Region: PRK01973 1031711000228 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1031711000229 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1031711000230 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1031711000231 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1031711000232 active site 1031711000233 metal binding site [ion binding]; metal-binding site 1031711000234 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1031711000235 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1031711000236 Sel1-like repeats; Region: SEL1; smart00671 1031711000237 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1031711000238 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711000239 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1031711000240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4322 1031711000241 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 1031711000242 IHF dimer interface [polypeptide binding]; other site 1031711000243 IHF - DNA interface [nucleotide binding]; other site 1031711000244 Proteins containing SET domain [General function prediction only]; Region: COG2940 1031711000245 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1031711000246 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1031711000247 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 1031711000248 dimer interface [polypeptide binding]; other site 1031711000249 phosphorylation site [posttranslational modification] 1031711000250 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 1031711000251 ATP binding site [chemical binding]; other site 1031711000252 Mg2+ binding site [ion binding]; other site 1031711000253 G-X-G motif; other site 1031711000254 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711000255 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 1031711000256 active site 1031711000257 phosphorylation site [posttranslational modification] 1031711000258 intermolecular recognition site; other site 1031711000259 dimerization interface [polypeptide binding]; other site 1031711000260 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 1031711000261 DNA binding site [nucleotide binding] 1031711000262 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1031711000263 aromatic arch; other site 1031711000264 DCoH dimer interaction site [polypeptide binding]; other site 1031711000265 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1031711000266 DCoH tetramer interaction site [polypeptide binding]; other site 1031711000267 substrate binding site [chemical binding]; other site 1031711000268 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1031711000269 cofactor binding site; other site 1031711000270 metal binding site [ion binding]; metal-binding site 1031711000271 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711000272 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1031711000273 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711000274 Predicted membrane protein [Function unknown]; Region: COG3714 1031711000275 ornithine cyclodeaminase; Validated; Region: PRK07340 1031711000276 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1031711000277 OmpW family; Region: OmpW; cl17427 1031711000278 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1031711000279 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1031711000280 metal-binding site [ion binding] 1031711000281 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 1031711000282 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1031711000283 metal-binding site [ion binding] 1031711000284 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1031711000285 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 1031711000286 motif II; other site 1031711000287 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1031711000288 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1031711000289 DNA binding residues [nucleotide binding] 1031711000290 dimer interface [polypeptide binding]; other site 1031711000291 copper binding site [ion binding]; other site 1031711000292 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1031711000293 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711000294 choline dehydrogenase; Validated; Region: PRK02106 1031711000295 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1031711000296 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711000297 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711000298 Walker A/P-loop; other site 1031711000299 ATP binding site [chemical binding]; other site 1031711000300 Q-loop/lid; other site 1031711000301 ABC transporter signature motif; other site 1031711000302 Walker B; other site 1031711000303 D-loop; other site 1031711000304 H-loop/switch region; other site 1031711000305 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711000306 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711000307 Walker A/P-loop; other site 1031711000308 ATP binding site [chemical binding]; other site 1031711000309 Q-loop/lid; other site 1031711000310 ABC transporter signature motif; other site 1031711000311 Walker B; other site 1031711000312 D-loop; other site 1031711000313 H-loop/switch region; other site 1031711000314 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711000315 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1031711000316 putative ligand binding site [chemical binding]; other site 1031711000317 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711000318 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 1031711000319 TM-ABC transporter signature motif; other site 1031711000320 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711000321 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 1031711000322 TM-ABC transporter signature motif; other site 1031711000323 hypothetical protein; Provisional; Region: PRK10621 1031711000324 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711000325 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 1031711000326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711000327 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1031711000328 NAD(P) binding site [chemical binding]; other site 1031711000329 active site 1031711000330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711000331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711000332 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 1031711000333 dimerization interface [polypeptide binding]; other site 1031711000334 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1031711000335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711000336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711000337 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1031711000338 putative effector binding pocket; other site 1031711000339 putative dimerization interface [polypeptide binding]; other site 1031711000340 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1031711000341 putative NAD(P) binding site [chemical binding]; other site 1031711000342 homodimer interface [polypeptide binding]; other site 1031711000343 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711000344 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1031711000345 putative ligand binding site [chemical binding]; other site 1031711000346 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1031711000347 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1031711000348 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1031711000349 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1031711000350 Putative methyltransferase; Region: Methyltransf_16; pfam10294 1031711000351 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 1031711000352 S-adenosylmethionine binding site [chemical binding]; other site 1031711000353 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1031711000354 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 1031711000355 P-loop; other site 1031711000356 Magnesium ion binding site [ion binding]; other site 1031711000357 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 1031711000358 Magnesium ion binding site [ion binding]; other site 1031711000359 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1031711000360 ParB-like nuclease domain; Region: ParB; smart00470 1031711000361 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1031711000362 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1031711000363 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1031711000364 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1031711000365 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1031711000366 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1031711000367 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1031711000368 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1031711000369 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1031711000370 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 1031711000371 beta subunit interaction interface [polypeptide binding]; other site 1031711000372 Walker A motif; other site 1031711000373 ATP binding site [chemical binding]; other site 1031711000374 Walker B motif; other site 1031711000375 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1031711000376 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1031711000377 core domain interface [polypeptide binding]; other site 1031711000378 delta subunit interface [polypeptide binding]; other site 1031711000379 epsilon subunit interface [polypeptide binding]; other site 1031711000380 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1031711000381 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1031711000382 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 1031711000383 alpha subunit interaction interface [polypeptide binding]; other site 1031711000384 Walker A motif; other site 1031711000385 ATP binding site [chemical binding]; other site 1031711000386 Walker B motif; other site 1031711000387 inhibitor binding site; inhibition site 1031711000388 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1031711000389 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1031711000390 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1031711000391 gamma subunit interface [polypeptide binding]; other site 1031711000392 epsilon subunit interface [polypeptide binding]; other site 1031711000393 LBP interface [polypeptide binding]; other site 1031711000394 FecR protein; Region: FecR; pfam04773 1031711000395 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1031711000396 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1031711000397 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 1031711000398 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711000399 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 1031711000400 PBP superfamily domain; Region: PBP_like_2; cl17296 1031711000401 glutathionine S-transferase; Provisional; Region: PRK10542 1031711000402 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1031711000403 C-terminal domain interface [polypeptide binding]; other site 1031711000404 GSH binding site (G-site) [chemical binding]; other site 1031711000405 dimer interface [polypeptide binding]; other site 1031711000406 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1031711000407 dimer interface [polypeptide binding]; other site 1031711000408 N-terminal domain interface [polypeptide binding]; other site 1031711000409 substrate binding pocket (H-site) [chemical binding]; other site 1031711000410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711000411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711000412 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 1031711000413 dimerization interface [polypeptide binding]; other site 1031711000414 Cache domain; Region: Cache_1; pfam02743 1031711000415 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 1031711000416 dimerization interface [polypeptide binding]; other site 1031711000417 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1031711000418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711000419 dimer interface [polypeptide binding]; other site 1031711000420 putative CheW interface [polypeptide binding]; other site 1031711000421 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1031711000422 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1031711000423 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1031711000424 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1031711000425 substrate binding site [chemical binding]; other site 1031711000426 active site 1031711000427 primosome assembly protein PriA; Validated; Region: PRK05580 1031711000428 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 1031711000429 ATP binding site [chemical binding]; other site 1031711000430 putative Mg++ binding site [ion binding]; other site 1031711000431 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1031711000432 Predicted transcriptional regulator [Transcription]; Region: COG3905 1031711000433 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1031711000434 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1031711000435 Glutamate binding site [chemical binding]; other site 1031711000436 NAD binding site [chemical binding]; other site 1031711000437 catalytic residues [active] 1031711000438 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1031711000439 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711000440 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1031711000441 dimerization interface [polypeptide binding]; other site 1031711000442 ligand binding site [chemical binding]; other site 1031711000443 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1031711000444 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1031711000445 Predicted membrane protein [Function unknown]; Region: COG1297 1031711000446 putative oligopeptide transporter, OPT family; Region: TIGR00733 1031711000447 Ferritin-like; Region: Ferritin-like; pfam12902 1031711000448 hypothetical protein; Provisional; Region: PRK05409 1031711000449 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1031711000450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711000451 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711000452 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711000453 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1031711000454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1031711000455 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1031711000456 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1031711000457 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1031711000458 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1031711000459 glycine dehydrogenase; Provisional; Region: PRK05367 1031711000460 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 1031711000461 tetramer interface [polypeptide binding]; other site 1031711000462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711000463 catalytic residue [active] 1031711000464 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 1031711000465 tetramer interface [polypeptide binding]; other site 1031711000466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711000467 catalytic residue [active] 1031711000468 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 1031711000469 lipoyl attachment site [posttranslational modification]; other site 1031711000470 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1031711000471 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1031711000472 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1031711000473 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1031711000474 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1031711000475 Part of AAA domain; Region: AAA_19; pfam13245 1031711000476 Family description; Region: UvrD_C_2; pfam13538 1031711000477 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 1031711000478 Inclusion body protein; Region: PixA; pfam12306 1031711000479 Inclusion body protein; Region: PixA; pfam12306 1031711000480 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1031711000481 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1031711000482 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 1031711000483 DNA binding residues [nucleotide binding] 1031711000484 dimerization interface [polypeptide binding]; other site 1031711000485 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 1031711000486 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711000487 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1031711000488 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1031711000489 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 1031711000490 FeS/SAM binding site; other site 1031711000491 HemN C-terminal domain; Region: HemN_C; pfam06969 1031711000492 pyruvate kinase; Provisional; Region: PRK06247 1031711000493 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 1031711000494 domain interfaces; other site 1031711000495 active site 1031711000496 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1031711000497 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1031711000498 MOFRL family; Region: MOFRL; pfam05161 1031711000499 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1031711000500 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1031711000501 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1031711000502 glyoxylate carboligase; Provisional; Region: PRK11269 1031711000503 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1031711000504 PYR/PP interface [polypeptide binding]; other site 1031711000505 dimer interface [polypeptide binding]; other site 1031711000506 TPP binding site [chemical binding]; other site 1031711000507 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1031711000508 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 1031711000509 TPP-binding site [chemical binding]; other site 1031711000510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711000511 transcriptional activator TtdR; Provisional; Region: PRK09801 1031711000512 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711000513 putative effector binding pocket; other site 1031711000514 dimerization interface [polypeptide binding]; other site 1031711000515 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1031711000516 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 1031711000517 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711000518 non-specific DNA binding site [nucleotide binding]; other site 1031711000519 salt bridge; other site 1031711000520 sequence-specific DNA binding site [nucleotide binding]; other site 1031711000521 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1031711000522 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1031711000523 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1031711000524 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1031711000525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711000526 DNA-binding site [nucleotide binding]; DNA binding site 1031711000527 FCD domain; Region: FCD; pfam07729 1031711000528 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1031711000529 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1031711000530 allantoicase; Provisional; Region: PRK13257 1031711000531 Allantoicase repeat; Region: Allantoicase; pfam03561 1031711000532 Allantoicase repeat; Region: Allantoicase; pfam03561 1031711000533 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1031711000534 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1031711000535 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 1031711000536 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1031711000537 metal binding site [ion binding]; metal-binding site 1031711000538 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711000539 ArsC family; Region: ArsC; pfam03960 1031711000540 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1031711000541 active site 1031711000542 substrate binding site [chemical binding]; other site 1031711000543 catalytic site [active] 1031711000544 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1031711000545 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1031711000546 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1031711000547 Predicted methyltransferases [General function prediction only]; Region: COG0313 1031711000548 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1031711000549 putative SAM binding site [chemical binding]; other site 1031711000550 putative homodimer interface [polypeptide binding]; other site 1031711000551 hypothetical protein; Provisional; Region: PRK14673 1031711000552 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1031711000553 BON domain; Region: BON; pfam04972 1031711000554 bacterial OsmY and nodulation domain; Region: BON; smart00749 1031711000555 Cytochrome c; Region: Cytochrom_C; cl11414 1031711000556 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1031711000557 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 1031711000558 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1031711000559 EamA-like transporter family; Region: EamA; pfam00892 1031711000560 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 1031711000561 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1031711000562 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1031711000563 Uncharacterized conserved protein [Function unknown]; Region: COG1416 1031711000564 Cytochrome c; Region: Cytochrom_C; cl11414 1031711000565 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 1031711000566 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711000567 catalytic residues [active] 1031711000568 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 1031711000569 active site 1031711000570 metal binding site [ion binding]; metal-binding site 1031711000571 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1031711000572 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1031711000573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711000574 AAA domain; Region: AAA_21; pfam13304 1031711000575 Walker A/P-loop; other site 1031711000576 ATP binding site [chemical binding]; other site 1031711000577 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1031711000578 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 1031711000579 ligand binding site [chemical binding]; other site 1031711000580 flexible hinge region; other site 1031711000581 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 1031711000582 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1031711000583 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1031711000584 catalytic residues [active] 1031711000585 catalytic nucleophile [active] 1031711000586 Presynaptic Site I dimer interface [polypeptide binding]; other site 1031711000587 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1031711000588 Synaptic Flat tetramer interface [polypeptide binding]; other site 1031711000589 Synaptic Site I dimer interface [polypeptide binding]; other site 1031711000590 DNA binding site [nucleotide binding] 1031711000591 Recombinase; Region: Recombinase; pfam07508 1031711000592 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1031711000593 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 1031711000594 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1031711000595 GIY-YIG motif/motif A; other site 1031711000596 active site 1031711000597 catalytic site [active] 1031711000598 Helix-turn-helix domain; Region: HTH_17; cl17695 1031711000599 Helix-turn-helix domain; Region: HTH_17; pfam12728 1031711000600 AAA domain; Region: AAA_24; pfam13479 1031711000601 hypothetical protein; Validated; Region: PRK07078 1031711000602 D5 N terminal like; Region: D5_N; pfam08706 1031711000603 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; cl17280 1031711000604 active site 1031711000605 putative DNA-binding cleft [nucleotide binding]; other site 1031711000606 dimer interface [polypeptide binding]; other site 1031711000607 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1031711000608 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1031711000609 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711000610 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711000611 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1031711000612 DNA methylase; Region: N6_N4_Mtase; pfam01555 1031711000613 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711000614 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711000615 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1031711000616 DNA methylase; Region: N6_N4_Mtase; pfam01555 1031711000617 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 1031711000618 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1031711000619 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1031711000620 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1031711000621 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1031711000622 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1031711000623 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1031711000624 tandem repeat interface [polypeptide binding]; other site 1031711000625 oligomer interface [polypeptide binding]; other site 1031711000626 active site residues [active] 1031711000627 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1031711000628 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1031711000629 H-NS histone family; Region: Histone_HNS; pfam00816 1031711000630 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711000631 Phage-related minor tail protein [Function unknown]; Region: COG5281 1031711000632 tape measure domain; Region: tape_meas_nterm; TIGR02675 1031711000633 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1031711000634 catalytic residues [active] 1031711000635 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1031711000636 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711000637 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 1031711000638 non-specific DNA binding site [nucleotide binding]; other site 1031711000639 salt bridge; other site 1031711000640 sequence-specific DNA binding site [nucleotide binding]; other site 1031711000641 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711000642 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711000643 putative ligand binding site [chemical binding]; other site 1031711000644 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 1031711000645 non-specific DNA binding site [nucleotide binding]; other site 1031711000646 salt bridge; other site 1031711000647 sequence-specific DNA binding site [nucleotide binding]; other site 1031711000648 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 1031711000649 Catalytic site [active] 1031711000650 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1031711000651 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1031711000652 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711000653 active site 1031711000654 metal binding site [ion binding]; metal-binding site 1031711000655 hexamer interface [polypeptide binding]; other site 1031711000656 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711000657 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711000658 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711000659 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711000660 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711000661 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1031711000662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1031711000663 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 1031711000664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1031711000665 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 1031711000666 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711000667 Integrase core domain; Region: rve; pfam00665 1031711000668 Integrase core domain; Region: rve_3; pfam13683 1031711000669 Transposase; Region: HTH_Tnp_1; cl17663 1031711000670 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711000671 potential frameshift: common BLAST hit: gi|116622331|ref|YP_824487.1| transcriptional regulator domain-containing protein 1031711000672 Predicted integral membrane protein [Function unknown]; Region: COG5616 1031711000673 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 1031711000674 TPR motif; other site 1031711000675 TPR repeat; Region: TPR_11; pfam13414 1031711000676 binding surface 1031711000677 TPR repeat; Region: TPR_11; pfam13414 1031711000678 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 1031711000679 binding surface 1031711000680 TPR motif; other site 1031711000681 TPR repeat; Region: TPR_11; pfam13414 1031711000682 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 1031711000683 binding surface 1031711000684 TPR motif; other site 1031711000685 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1031711000686 ligand-binding site [chemical binding]; other site 1031711000687 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 1031711000688 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1031711000689 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 1031711000690 binding surface 1031711000691 TPR motif; other site 1031711000692 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1031711000693 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 1031711000694 binding surface 1031711000695 TPR motif; other site 1031711000696 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 1031711000697 binding surface 1031711000698 TPR motif; other site 1031711000699 TPR repeat; Region: TPR_11; pfam13414 1031711000700 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 1031711000701 TPR motif; other site 1031711000702 binding surface 1031711000703 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1031711000704 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1031711000705 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1031711000706 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711000707 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 1031711000708 active site 1031711000709 phosphorylation site [posttranslational modification] 1031711000710 intermolecular recognition site; other site 1031711000711 dimerization interface [polypeptide binding]; other site 1031711000712 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 1031711000713 DNA binding residues [nucleotide binding] 1031711000714 dimerization interface [polypeptide binding]; other site 1031711000715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1031711000716 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 1031711000717 ATP binding site [chemical binding]; other site 1031711000718 Mg2+ binding site [ion binding]; other site 1031711000719 G-X-G motif; other site 1031711000720 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1031711000721 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 1031711000722 S-adenosylmethionine binding site [chemical binding]; other site 1031711000723 Predicted flavoproteins [General function prediction only]; Region: COG2081 1031711000724 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711000725 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1031711000726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1031711000727 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1031711000728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 1031711000729 transaminase; Validated; Region: PRK07324 1031711000730 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 1031711000731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711000732 homodimer interface [polypeptide binding]; other site 1031711000733 catalytic residue [active] 1031711000734 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1031711000735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711000736 NAD(P) binding site [chemical binding]; other site 1031711000737 active site 1031711000738 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1031711000739 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 1031711000740 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711000741 catalytic residue [active] 1031711000742 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1031711000743 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1031711000744 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711000745 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1031711000746 Zn binding site [ion binding]; other site 1031711000747 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1031711000748 Cytochrome c; Region: Cytochrom_C; pfam00034 1031711000749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711000750 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 1031711000751 non-specific DNA binding site [nucleotide binding]; other site 1031711000752 salt bridge; other site 1031711000753 sequence-specific DNA binding site [nucleotide binding]; other site 1031711000754 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711000755 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711000756 putative ligand binding site [chemical binding]; other site 1031711000757 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1031711000758 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711000759 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711000760 metal binding site [ion binding]; metal-binding site 1031711000761 active site 1031711000762 I-site; other site 1031711000763 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1031711000764 active site 1031711000765 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 1031711000766 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1031711000767 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1031711000768 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711000769 MarR family; Region: MarR_2; cl17246 1031711000770 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1031711000771 classical (c) SDRs; Region: SDR_c; cd05233 1031711000772 NAD(P) binding site [chemical binding]; other site 1031711000773 active site 1031711000774 Uncharacterized conserved protein [Function unknown]; Region: COG3868 1031711000775 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1031711000776 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1031711000777 putative active site [active] 1031711000778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711000779 dimer interface [polypeptide binding]; other site 1031711000780 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1031711000781 putative CheW interface [polypeptide binding]; other site 1031711000782 LabA_like proteins; Region: LabA_like; cd06167 1031711000783 putative metal binding site [ion binding]; other site 1031711000784 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1031711000785 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1031711000786 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1031711000787 dinuclear metal binding motif [ion binding]; other site 1031711000788 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1031711000789 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1031711000790 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1031711000791 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711000792 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 1031711000793 non-specific DNA binding site [nucleotide binding]; other site 1031711000794 salt bridge; other site 1031711000795 sequence-specific DNA binding site [nucleotide binding]; other site 1031711000796 Cupin domain; Region: Cupin_2; cl17218 1031711000797 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1031711000798 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1031711000799 putative ligand binding site [chemical binding]; other site 1031711000800 putative NAD binding site [chemical binding]; other site 1031711000801 catalytic site [active] 1031711000802 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1031711000803 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1031711000804 NAD binding site [chemical binding]; other site 1031711000805 substrate binding site [chemical binding]; other site 1031711000806 catalytic Zn binding site [ion binding]; other site 1031711000807 tetramer interface [polypeptide binding]; other site 1031711000808 structural Zn binding site [ion binding]; other site 1031711000809 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1031711000810 PAS domain; Region: PAS; smart00091 1031711000811 putative active site [active] 1031711000812 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 1031711000813 Walker A motif; other site 1031711000814 ATP binding site [chemical binding]; other site 1031711000815 Walker B motif; other site 1031711000816 arginine finger; other site 1031711000817 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711000818 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1031711000819 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711000820 NAD(P) binding site [chemical binding]; other site 1031711000821 catalytic residues [active] 1031711000822 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1031711000823 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1031711000824 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1031711000825 exonuclease I; Provisional; Region: sbcB; PRK11779 1031711000826 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1031711000827 active site 1031711000828 catalytic site [active] 1031711000829 substrate binding site [chemical binding]; other site 1031711000830 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1031711000831 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1031711000832 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 1031711000833 dimer interface [polypeptide binding]; other site 1031711000834 PYR/PP interface [polypeptide binding]; other site 1031711000835 TPP binding site [chemical binding]; other site 1031711000836 substrate binding site [chemical binding]; other site 1031711000837 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1031711000838 TPP-binding site; other site 1031711000839 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1031711000840 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1031711000841 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 1031711000842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711000843 DNA-binding site [nucleotide binding]; DNA binding site 1031711000844 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 1031711000845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711000846 homodimer interface [polypeptide binding]; other site 1031711000847 catalytic residue [active] 1031711000848 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 1031711000849 DNA-binding interface [nucleotide binding]; DNA binding site 1031711000850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711000851 Integrase core domain; Region: rve; pfam00665 1031711000852 transposase/IS protein; Provisional; Region: PRK09183 1031711000853 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711000854 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 1031711000855 Walker A motif; other site 1031711000856 ATP binding site [chemical binding]; other site 1031711000857 Walker B motif; other site 1031711000858 potential frameshift: common BLAST hit: gi|300693830|ref|YP_003749803.1| type III effector protein 1031711000859 type II secretion system protein F; Region: GspF; TIGR02120 1031711000860 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711000861 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711000862 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1031711000863 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1031711000864 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 1031711000865 Walker A motif; other site 1031711000866 ATP binding site [chemical binding]; other site 1031711000867 Walker B motif; other site 1031711000868 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711000869 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711000870 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711000871 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1031711000872 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711000873 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1031711000874 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 1031711000875 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1031711000876 GspL periplasmic domain; Region: GspL_C; pfam12693 1031711000877 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 1031711000878 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 1031711000879 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1031711000880 Type II transport protein GspH; Region: GspH; pfam12019 1031711000881 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1031711000882 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711000883 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1031711000884 EF-hand domain pair; Region: EF_hand_5; pfam13499 1031711000885 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1031711000886 EF-hand domain pair; Region: EF_hand_5; pfam13499 1031711000887 Ca2+ binding site [ion binding]; other site 1031711000888 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1031711000889 EF-hand domain pair; Region: EF_hand_5; pfam13499 1031711000890 Ca2+ binding site [ion binding]; other site 1031711000891 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1031711000892 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1031711000893 dimer interface [polypeptide binding]; other site 1031711000894 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1031711000895 active site 1031711000896 Fe binding site [ion binding]; other site 1031711000897 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711000898 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 1031711000899 putative DNA binding site [nucleotide binding]; other site 1031711000900 putative Zn2+ binding site [ion binding]; other site 1031711000901 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711000902 potential frameshift: common BLAST hit: gi|300702692|ref|YP_003744292.1| serine protease protein 1031711000903 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 1031711000904 putative catalytic triad [active] 1031711000905 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1031711000906 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 1031711000907 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1031711000908 SnoaL-like domain; Region: SnoaL_3; pfam13474 1031711000909 Cupin domain; Region: Cupin_2; cl17218 1031711000910 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1031711000911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711000912 Coenzyme A binding pocket [chemical binding]; other site 1031711000913 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1031711000914 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711000915 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1031711000916 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1031711000917 TrkA-N domain; Region: TrkA_N; pfam02254 1031711000918 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1031711000919 Protein of unknown function; Region: DUF3658; pfam12395 1031711000920 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1031711000921 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1031711000922 metal binding site [ion binding]; metal-binding site 1031711000923 dimer interface [polypeptide binding]; other site 1031711000924 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711000925 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711000926 trimer interface [polypeptide binding]; other site 1031711000927 eyelet of channel; other site 1031711000928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1031711000929 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1031711000930 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 1031711000931 active site 1031711000932 phosphorylation site [posttranslational modification] 1031711000933 intermolecular recognition site; other site 1031711000934 dimerization interface [polypeptide binding]; other site 1031711000935 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 1031711000936 DNA binding site [nucleotide binding] 1031711000937 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1031711000938 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1031711000939 Cytochrome c; Region: Cytochrom_C; cl11414 1031711000940 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1031711000941 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 1031711000942 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1031711000943 DNA binding residues [nucleotide binding] 1031711000944 putative dimer interface [polypeptide binding]; other site 1031711000945 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1031711000946 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1031711000947 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711000948 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711000949 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711000950 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1031711000951 classical (c) SDRs; Region: SDR_c; cd05233 1031711000952 NAD(P) binding site [chemical binding]; other site 1031711000953 active site 1031711000954 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1031711000955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1031711000956 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 1031711000957 PAS domain; Region: PAS_9; pfam13426 1031711000958 putative active site [active] 1031711000959 heme pocket [chemical binding]; other site 1031711000960 PAS fold; Region: PAS; pfam00989 1031711000961 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 1031711000962 dimer interface [polypeptide binding]; other site 1031711000963 phosphorylation site [posttranslational modification] 1031711000964 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 1031711000965 ATP binding site [chemical binding]; other site 1031711000966 Mg2+ binding site [ion binding]; other site 1031711000967 G-X-G motif; other site 1031711000968 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711000969 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 1031711000970 active site 1031711000971 phosphorylation site [posttranslational modification] 1031711000972 intermolecular recognition site; other site 1031711000973 dimerization interface [polypeptide binding]; other site 1031711000974 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711000975 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 1031711000976 active site 1031711000977 phosphorylation site [posttranslational modification] 1031711000978 intermolecular recognition site; other site 1031711000979 dimerization interface [polypeptide binding]; other site 1031711000980 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 1031711000981 DNA binding residues [nucleotide binding] 1031711000982 dimerization interface [polypeptide binding]; other site 1031711000983 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1031711000984 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1031711000985 glutathione s-transferase; Provisional; Region: PTZ00057 1031711000986 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 1031711000987 GSH binding site (G-site) [chemical binding]; other site 1031711000988 C-terminal domain interface [polypeptide binding]; other site 1031711000989 dimer interface [polypeptide binding]; other site 1031711000990 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 1031711000991 N-terminal domain interface [polypeptide binding]; other site 1031711000992 dimer interface [polypeptide binding]; other site 1031711000993 substrate binding pocket (H-site) [chemical binding]; other site 1031711000994 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 1031711000995 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711000996 putative substrate translocation pore; other site 1031711000997 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1031711000998 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1031711000999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1031711001000 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1031711001001 similar to truncated putative transcriptional regulator, XRE family; RSPO_c00430 1031711001002 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1031711001003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711001004 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 1031711001005 active site 1031711001006 phosphorylation site [posttranslational modification] 1031711001007 intermolecular recognition site; other site 1031711001008 dimerization interface [polypeptide binding]; other site 1031711001009 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 1031711001010 DNA binding site [nucleotide binding] 1031711001011 sensor protein RstB; Provisional; Region: PRK10604 1031711001012 HAMP domain; Region: HAMP; pfam00672 1031711001013 dimerization interface [polypeptide binding]; other site 1031711001014 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 1031711001015 dimer interface [polypeptide binding]; other site 1031711001016 phosphorylation site [posttranslational modification] 1031711001017 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 1031711001018 ATP binding site [chemical binding]; other site 1031711001019 Mg2+ binding site [ion binding]; other site 1031711001020 G-X-G motif; other site 1031711001021 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1031711001022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711001023 Helix-turn-helix domain; Region: HTH_18; pfam12833 1031711001024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711001025 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711001026 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711001027 putative ligand binding site [chemical binding]; other site 1031711001028 citrate-proton symporter; Provisional; Region: PRK15075 1031711001029 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 1031711001030 putative substrate translocation pore; other site 1031711001031 citrate-proton symporter; Provisional; Region: PRK15075 1031711001032 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 1031711001033 putative substrate translocation pore; other site 1031711001034 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1031711001035 dimerization interface [polypeptide binding]; other site 1031711001036 putative active cleft [active] 1031711001037 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1031711001038 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1031711001039 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 1031711001040 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 1031711001041 putative active site [active] 1031711001042 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 1031711001043 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1031711001044 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1031711001045 N- and C-terminal domain interface [polypeptide binding]; other site 1031711001046 active site 1031711001047 MgATP binding site [chemical binding]; other site 1031711001048 catalytic site [active] 1031711001049 metal binding site [ion binding]; metal-binding site 1031711001050 glycerol binding site [chemical binding]; other site 1031711001051 homotetramer interface [polypeptide binding]; other site 1031711001052 homodimer interface [polypeptide binding]; other site 1031711001053 FBP binding site [chemical binding]; other site 1031711001054 protein IIAGlc interface [polypeptide binding]; other site 1031711001055 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1031711001056 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1031711001057 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1031711001058 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1031711001059 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 1031711001060 dimer interface [polypeptide binding]; other site 1031711001061 conserved gate region; other site 1031711001062 putative PBP binding loops; other site 1031711001063 ABC-ATPase subunit interface; other site 1031711001064 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1031711001065 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 1031711001066 dimer interface [polypeptide binding]; other site 1031711001067 conserved gate region; other site 1031711001068 putative PBP binding loops; other site 1031711001069 ABC-ATPase subunit interface; other site 1031711001070 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1031711001071 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1031711001072 Walker A/P-loop; other site 1031711001073 ATP binding site [chemical binding]; other site 1031711001074 Q-loop/lid; other site 1031711001075 ABC transporter signature motif; other site 1031711001076 Walker B; other site 1031711001077 D-loop; other site 1031711001078 H-loop/switch region; other site 1031711001079 TOBE domain; Region: TOBE_2; pfam08402 1031711001080 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1031711001081 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1031711001082 Walker A/P-loop; other site 1031711001083 ATP binding site [chemical binding]; other site 1031711001084 Q-loop/lid; other site 1031711001085 ABC transporter signature motif; other site 1031711001086 Walker B; other site 1031711001087 D-loop; other site 1031711001088 H-loop/switch region; other site 1031711001089 TOBE domain; Region: TOBE_2; pfam08402 1031711001090 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1031711001091 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1031711001092 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1031711001093 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1031711001094 Uncharacterized conserved protein [Function unknown]; Region: COG5607 1031711001095 elongation factor Tu; Reviewed; Region: PRK00049 1031711001096 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1031711001097 G1 box; other site 1031711001098 GEF interaction site [polypeptide binding]; other site 1031711001099 GTP/Mg2+ binding site [chemical binding]; other site 1031711001100 Switch I region; other site 1031711001101 G2 box; other site 1031711001102 G3 box; other site 1031711001103 Switch II region; other site 1031711001104 G4 box; other site 1031711001105 G5 box; other site 1031711001106 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 1031711001107 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 1031711001108 Antibiotic Binding Site [chemical binding]; other site 1031711001109 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1031711001110 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1031711001111 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1031711001112 putative homodimer interface [polypeptide binding]; other site 1031711001113 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1031711001114 heterodimer interface [polypeptide binding]; other site 1031711001115 homodimer interface [polypeptide binding]; other site 1031711001116 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1031711001117 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 1031711001118 23S rRNA interface [nucleotide binding]; other site 1031711001119 L7/L12 interface [polypeptide binding]; other site 1031711001120 putative thiostrepton binding site; other site 1031711001121 L25 interface [polypeptide binding]; other site 1031711001122 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 1031711001123 mRNA/rRNA interface [nucleotide binding]; other site 1031711001124 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 1031711001125 23S rRNA interface [nucleotide binding]; other site 1031711001126 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1031711001127 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 1031711001128 core dimer interface [polypeptide binding]; other site 1031711001129 peripheral dimer interface [polypeptide binding]; other site 1031711001130 L10 interface [polypeptide binding]; other site 1031711001131 L11 interface [polypeptide binding]; other site 1031711001132 putative EF-Tu interaction site [polypeptide binding]; other site 1031711001133 putative EF-G interaction site [polypeptide binding]; other site 1031711001134 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1031711001135 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1031711001136 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1031711001137 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 1031711001138 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1031711001139 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 1031711001140 RPB3 interaction site [polypeptide binding]; other site 1031711001141 RPB1 interaction site [polypeptide binding]; other site 1031711001142 RPB11 interaction site [polypeptide binding]; other site 1031711001143 RPB10 interaction site [polypeptide binding]; other site 1031711001144 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1031711001145 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1031711001146 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1031711001147 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1031711001148 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1031711001149 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1031711001150 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1031711001151 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1031711001152 DNA binding site [nucleotide binding] 1031711001153 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1031711001154 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; pfam09909 1031711001155 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 1031711001156 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1031711001157 MG2 domain; Region: A2M_N; pfam01835 1031711001158 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1031711001159 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1031711001160 Predicted secreted protein [Function unknown]; Region: COG5445 1031711001161 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1031711001162 Predicted secreted protein [Function unknown]; Region: COG5445 1031711001163 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1031711001164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1031711001165 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1031711001166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1031711001167 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1031711001168 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1031711001169 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 1031711001170 S-adenosylmethionine binding site [chemical binding]; other site 1031711001171 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1031711001172 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 1031711001173 ATP binding site [chemical binding]; other site 1031711001174 putative Mg++ binding site [ion binding]; other site 1031711001175 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 1031711001176 nucleotide binding region [chemical binding]; other site 1031711001177 ATP-binding site [chemical binding]; other site 1031711001178 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1031711001179 HRDC domain; Region: HRDC; pfam00570 1031711001180 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 1031711001181 S17 interaction site [polypeptide binding]; other site 1031711001182 S8 interaction site; other site 1031711001183 16S rRNA interaction site [nucleotide binding]; other site 1031711001184 streptomycin interaction site [chemical binding]; other site 1031711001185 23S rRNA interaction site [nucleotide binding]; other site 1031711001186 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1031711001187 30S ribosomal protein S7; Validated; Region: PRK05302 1031711001188 elongation factor G; Reviewed; Region: PRK00007 1031711001189 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1031711001190 G1 box; other site 1031711001191 putative GEF interaction site [polypeptide binding]; other site 1031711001192 GTP/Mg2+ binding site [chemical binding]; other site 1031711001193 Switch I region; other site 1031711001194 G2 box; other site 1031711001195 G3 box; other site 1031711001196 Switch II region; other site 1031711001197 G4 box; other site 1031711001198 G5 box; other site 1031711001199 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 1031711001200 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 1031711001201 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 1031711001202 elongation factor Tu; Reviewed; Region: PRK00049 1031711001203 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1031711001204 G1 box; other site 1031711001205 GEF interaction site [polypeptide binding]; other site 1031711001206 GTP/Mg2+ binding site [chemical binding]; other site 1031711001207 Switch I region; other site 1031711001208 G2 box; other site 1031711001209 G3 box; other site 1031711001210 Switch II region; other site 1031711001211 G4 box; other site 1031711001212 G5 box; other site 1031711001213 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 1031711001214 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 1031711001215 Antibiotic Binding Site [chemical binding]; other site 1031711001216 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1031711001217 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1031711001218 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1031711001219 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1031711001220 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1031711001221 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1031711001222 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1031711001223 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1031711001224 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 1031711001225 putative translocon binding site; other site 1031711001226 protein-rRNA interface [nucleotide binding]; other site 1031711001227 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1031711001228 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 1031711001229 G-X-X-G motif; other site 1031711001230 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1031711001231 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 1031711001232 23S rRNA interface [nucleotide binding]; other site 1031711001233 5S rRNA interface [nucleotide binding]; other site 1031711001234 putative antibiotic binding site [chemical binding]; other site 1031711001235 L25 interface [polypeptide binding]; other site 1031711001236 L27 interface [polypeptide binding]; other site 1031711001237 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 1031711001238 23S rRNA interface [nucleotide binding]; other site 1031711001239 putative translocon interaction site; other site 1031711001240 signal recognition particle (SRP54) interaction site; other site 1031711001241 L23 interface [polypeptide binding]; other site 1031711001242 trigger factor interaction site; other site 1031711001243 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1031711001244 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1031711001245 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1031711001246 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1031711001247 RNA binding site [nucleotide binding]; other site 1031711001248 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1031711001249 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1031711001250 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1031711001251 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1031711001252 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1031711001253 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1031711001254 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1031711001255 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1031711001256 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 1031711001257 5S rRNA interface [nucleotide binding]; other site 1031711001258 L27 interface [polypeptide binding]; other site 1031711001259 23S rRNA interface [nucleotide binding]; other site 1031711001260 L5 interface [polypeptide binding]; other site 1031711001261 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1031711001262 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1031711001263 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1031711001264 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 1031711001265 23S rRNA binding site [nucleotide binding]; other site 1031711001266 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1031711001267 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1031711001268 SecY translocase; Region: SecY; pfam00344 1031711001269 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 1031711001270 rRNA binding site [nucleotide binding]; other site 1031711001271 predicted 30S ribosome binding site; other site 1031711001272 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1031711001273 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1031711001274 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1031711001275 30S ribosomal protein S11; Validated; Region: PRK05309 1031711001276 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1031711001277 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1031711001278 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 1031711001279 RNA binding surface [nucleotide binding]; other site 1031711001280 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1031711001281 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1031711001282 alphaNTD homodimer interface [polypeptide binding]; other site 1031711001283 alphaNTD - beta interaction site [polypeptide binding]; other site 1031711001284 alphaNTD - beta' interaction site [polypeptide binding]; other site 1031711001285 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1031711001286 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1031711001287 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1031711001288 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1031711001289 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1031711001290 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1031711001291 DsbD alpha interface [polypeptide binding]; other site 1031711001292 catalytic residues [active] 1031711001293 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_aspartate_rich; cd04823 1031711001294 dimer interface [polypeptide binding]; other site 1031711001295 active site 1031711001296 aspartate-rich active site metal binding site; other site 1031711001297 allosteric magnesium binding site [ion binding]; other site 1031711001298 Schiff base residues; other site 1031711001299 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1031711001300 G1 box; other site 1031711001301 GTP/Mg2+ binding site [chemical binding]; other site 1031711001302 Switch I region; other site 1031711001303 G2 box; other site 1031711001304 G3 box; other site 1031711001305 Switch II region; other site 1031711001306 G4 box; other site 1031711001307 G5 box; other site 1031711001308 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1031711001309 Cytochrome c; Region: Cytochrom_C; cl11414 1031711001310 potential frameshift: common BLAST hit: gi|300702813|ref|YP_003744414.1| cytochrome C biogenesis transmembrane protein, resb-like family 1031711001311 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1031711001312 ResB-like family; Region: ResB; pfam05140 1031711001313 ResB-like family; Region: ResB; pfam05140 1031711001314 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1031711001315 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1031711001316 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1031711001317 RNA polymerase sigma factor; Provisional; Region: PRK12547 1031711001318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711001319 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 1031711001320 DNA binding residues [nucleotide binding] 1031711001321 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1031711001322 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1031711001323 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1031711001324 Moco binding site; other site 1031711001325 metal coordination site [ion binding]; other site 1031711001326 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1031711001327 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1031711001328 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1031711001329 active site 1031711001330 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711001331 substrate binding site [chemical binding]; other site 1031711001332 catalytic residues [active] 1031711001333 dimer interface [polypeptide binding]; other site 1031711001334 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1031711001335 putative iron binding site [ion binding]; other site 1031711001336 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1031711001337 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1031711001338 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1031711001339 Transglycosylase; Region: Transgly; pfam00912 1031711001340 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1031711001341 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1031711001342 Cell division protein FtsA; Region: FtsA; cl17206 1031711001343 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1031711001344 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1031711001345 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1031711001346 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1031711001347 Pilus assembly protein, PilP; Region: PilP; pfam04351 1031711001348 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 1031711001349 AMIN domain; Region: AMIN; pfam11741 1031711001350 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711001351 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711001352 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711001353 shikimate kinase; Reviewed; Region: aroK; PRK00131 1031711001354 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 1031711001355 ADP binding site [chemical binding]; other site 1031711001356 magnesium binding site [ion binding]; other site 1031711001357 putative shikimate binding site; other site 1031711001358 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1031711001359 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1031711001360 active site 1031711001361 dimer interface [polypeptide binding]; other site 1031711001362 metal binding site [ion binding]; metal-binding site 1031711001363 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1031711001364 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711001365 Zn2+ binding site [ion binding]; other site 1031711001366 Mg2+ binding site [ion binding]; other site 1031711001367 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1031711001368 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1031711001369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1031711001370 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1031711001371 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 1031711001372 active site 1031711001373 dimer interface [polypeptide binding]; other site 1031711001374 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1031711001375 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 1031711001376 active site 1031711001377 FMN binding site [chemical binding]; other site 1031711001378 substrate binding site [chemical binding]; other site 1031711001379 3Fe-4S cluster binding site [ion binding]; other site 1031711001380 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 1031711001381 domain interface; other site 1031711001382 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1031711001383 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711001384 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711001385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1031711001386 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1031711001387 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1031711001388 Walker A/P-loop; other site 1031711001389 ATP binding site [chemical binding]; other site 1031711001390 Q-loop/lid; other site 1031711001391 ABC transporter signature motif; other site 1031711001392 Walker B; other site 1031711001393 D-loop; other site 1031711001394 H-loop/switch region; other site 1031711001395 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1031711001396 Permease; Region: Permease; pfam02405 1031711001397 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1031711001398 mce related protein; Region: MCE; pfam02470 1031711001399 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1031711001400 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1031711001401 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 1031711001402 anti sigma factor interaction site; other site 1031711001403 regulatory phosphorylation site [posttranslational modification]; other site 1031711001404 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1031711001405 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1031711001406 Walker A/P-loop; other site 1031711001407 ATP binding site [chemical binding]; other site 1031711001408 Q-loop/lid; other site 1031711001409 ABC transporter signature motif; other site 1031711001410 Walker B; other site 1031711001411 D-loop; other site 1031711001412 H-loop/switch region; other site 1031711001413 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1031711001414 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1031711001415 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1031711001416 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1031711001417 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 1031711001418 hinge; other site 1031711001419 active site 1031711001420 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1031711001421 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1031711001422 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1031711001423 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 1031711001424 NAD binding site [chemical binding]; other site 1031711001425 dimerization interface [polypeptide binding]; other site 1031711001426 product binding site; other site 1031711001427 substrate binding site [chemical binding]; other site 1031711001428 zinc binding site [ion binding]; other site 1031711001429 catalytic residues [active] 1031711001430 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 1031711001431 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 1031711001432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711001433 homodimer interface [polypeptide binding]; other site 1031711001434 catalytic residue [active] 1031711001435 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1031711001436 putative active site pocket [active] 1031711001437 4-fold oligomerization interface [polypeptide binding]; other site 1031711001438 metal binding residues [ion binding]; metal-binding site 1031711001439 3-fold/trimer interface [polypeptide binding]; other site 1031711001440 MarC family integral membrane protein; Region: MarC; cl00919 1031711001441 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1031711001442 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1031711001443 putative active site [active] 1031711001444 oxyanion strand; other site 1031711001445 catalytic triad [active] 1031711001446 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 1031711001447 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1031711001448 catalytic residues [active] 1031711001449 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 1031711001450 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1031711001451 substrate binding site [chemical binding]; other site 1031711001452 glutamase interaction surface [polypeptide binding]; other site 1031711001453 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1031711001454 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 1031711001455 metal binding site [ion binding]; metal-binding site 1031711001456 Predicted membrane protein [Function unknown]; Region: COG3671 1031711001457 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1031711001458 sec-independent translocase; Provisional; Region: tatB; PRK01919 1031711001459 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1031711001460 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1031711001461 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1031711001462 Walker A/P-loop; other site 1031711001463 ATP binding site [chemical binding]; other site 1031711001464 Q-loop/lid; other site 1031711001465 ABC transporter signature motif; other site 1031711001466 Walker B; other site 1031711001467 D-loop; other site 1031711001468 H-loop/switch region; other site 1031711001469 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1031711001470 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 1031711001471 dimer interface [polypeptide binding]; other site 1031711001472 conserved gate region; other site 1031711001473 ABC-ATPase subunit interface; other site 1031711001474 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 1031711001475 dimer interface [polypeptide binding]; other site 1031711001476 conserved gate region; other site 1031711001477 putative PBP binding loops; other site 1031711001478 ABC-ATPase subunit interface; other site 1031711001479 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1031711001480 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1031711001481 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1031711001482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711001483 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 1031711001484 dimer interface [polypeptide binding]; other site 1031711001485 phosphorylation site [posttranslational modification] 1031711001486 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 1031711001487 ATP binding site [chemical binding]; other site 1031711001488 Mg2+ binding site [ion binding]; other site 1031711001489 G-X-G motif; other site 1031711001490 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1031711001491 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 1031711001492 active site 1031711001493 phosphorylation site [posttranslational modification] 1031711001494 intermolecular recognition site; other site 1031711001495 dimerization interface [polypeptide binding]; other site 1031711001496 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 1031711001497 DNA binding site [nucleotide binding] 1031711001498 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1031711001499 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1031711001500 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711001501 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711001502 trimer interface [polypeptide binding]; other site 1031711001503 eyelet of channel; other site 1031711001504 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1031711001505 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1031711001506 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 1031711001507 protein binding site [polypeptide binding]; other site 1031711001508 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1031711001509 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1031711001510 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1031711001511 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1031711001512 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1031711001513 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1031711001514 [2Fe-2S] cluster binding site [ion binding]; other site 1031711001515 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1031711001516 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; cd00284 1031711001517 Qi binding site; other site 1031711001518 intrachain domain interface; other site 1031711001519 interchain domain interface [polypeptide binding]; other site 1031711001520 heme bH binding site [chemical binding]; other site 1031711001521 heme bL binding site [chemical binding]; other site 1031711001522 Qo binding site; other site 1031711001523 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1031711001524 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1031711001525 Cytochrome c; Region: Cytochrom_C; cl11414 1031711001526 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1031711001527 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1031711001528 C-terminal domain interface [polypeptide binding]; other site 1031711001529 putative GSH binding site (G-site) [chemical binding]; other site 1031711001530 dimer interface [polypeptide binding]; other site 1031711001531 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1031711001532 dimer interface [polypeptide binding]; other site 1031711001533 N-terminal domain interface [polypeptide binding]; other site 1031711001534 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1031711001535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711001536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711001537 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1031711001538 putative effector binding pocket; other site 1031711001539 putative dimerization interface [polypeptide binding]; other site 1031711001540 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1031711001541 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711001542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711001543 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 1031711001544 dimer interface [polypeptide binding]; other site 1031711001545 phosphorylation site [posttranslational modification] 1031711001546 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 1031711001547 ATP binding site [chemical binding]; other site 1031711001548 Mg2+ binding site [ion binding]; other site 1031711001549 G-X-G motif; other site 1031711001550 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1031711001551 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1031711001552 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1031711001553 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1031711001554 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711001555 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1031711001556 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711001557 N-terminal plug; other site 1031711001558 ligand-binding site [chemical binding]; other site 1031711001559 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1031711001560 FecR protein; Region: FecR; pfam04773 1031711001561 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1031711001562 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 1031711001563 DNA binding residues [nucleotide binding] 1031711001564 similar to 5-truncated transmembrane cytochrome o ubiquinol oxidase (subunit II) protein; RSPO_c00588 1031711001565 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1031711001566 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1031711001567 D-pathway; other site 1031711001568 Putative ubiquinol binding site [chemical binding]; other site 1031711001569 Low-spin heme (heme b) binding site [chemical binding]; other site 1031711001570 Putative water exit pathway; other site 1031711001571 Binuclear center (heme o3/CuB) [ion binding]; other site 1031711001572 K-pathway; other site 1031711001573 Putative proton exit pathway; other site 1031711001574 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1031711001575 Subunit I/III interface [polypeptide binding]; other site 1031711001576 Subunit III/IV interface [polypeptide binding]; other site 1031711001577 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 1031711001578 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1031711001579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711001580 Walker A/P-loop; other site 1031711001581 ATP binding site [chemical binding]; other site 1031711001582 Q-loop/lid; other site 1031711001583 ABC transporter signature motif; other site 1031711001584 Walker B; other site 1031711001585 D-loop; other site 1031711001586 H-loop/switch region; other site 1031711001587 ABC transporter; Region: ABC_tran_2; pfam12848 1031711001588 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711001589 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 1031711001590 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1031711001591 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 1031711001592 putative deacylase active site [active] 1031711001593 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1031711001594 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1031711001595 Ligand binding site; other site 1031711001596 DXD motif; other site 1031711001597 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1031711001598 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1031711001599 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1031711001600 Flavoprotein; Region: Flavoprotein; pfam02441 1031711001601 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1031711001602 putative GSH binding site [chemical binding]; other site 1031711001603 catalytic residues [active] 1031711001604 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1031711001605 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 1031711001606 S-adenosylmethionine binding site [chemical binding]; other site 1031711001607 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1031711001608 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1031711001609 RF-1 domain; Region: RF-1; pfam00472 1031711001610 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1031711001611 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1031711001612 tRNA; other site 1031711001613 putative tRNA binding site [nucleotide binding]; other site 1031711001614 putative NADP binding site [chemical binding]; other site 1031711001615 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1031711001616 GTP-binding protein YchF; Reviewed; Region: PRK09601 1031711001617 YchF GTPase; Region: YchF; cd01900 1031711001618 G1 box; other site 1031711001619 GTP/Mg2+ binding site [chemical binding]; other site 1031711001620 Switch I region; other site 1031711001621 G2 box; other site 1031711001622 Switch II region; other site 1031711001623 G3 box; other site 1031711001624 G4 box; other site 1031711001625 G5 box; other site 1031711001626 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 1031711001627 Flagellar protein FliT; Region: FliT; pfam05400 1031711001628 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711001629 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 1031711001630 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711001631 catalytic residue [active] 1031711001632 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 1031711001633 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1031711001634 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1031711001635 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1031711001636 dimerization domain [polypeptide binding]; other site 1031711001637 dimer interface [polypeptide binding]; other site 1031711001638 catalytic residues [active] 1031711001639 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1031711001640 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1031711001641 NADP binding site [chemical binding]; other site 1031711001642 dimer interface [polypeptide binding]; other site 1031711001643 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1031711001644 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1031711001645 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 1031711001646 protein binding site [polypeptide binding]; other site 1031711001647 Predicted membrane protein [Function unknown]; Region: COG1289 1031711001648 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1031711001649 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1031711001650 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1031711001651 ligand binding site [chemical binding]; other site 1031711001652 active site 1031711001653 UGI interface [polypeptide binding]; other site 1031711001654 catalytic site [active] 1031711001655 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1031711001656 putative active site [active] 1031711001657 putative metal binding residues [ion binding]; other site 1031711001658 signature motif; other site 1031711001659 putative triphosphate binding site [ion binding]; other site 1031711001660 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 1031711001661 active site 1031711001662 ribulose/triose binding site [chemical binding]; other site 1031711001663 phosphate binding site [ion binding]; other site 1031711001664 substrate (anthranilate) binding pocket [chemical binding]; other site 1031711001665 product (indole) binding pocket [chemical binding]; other site 1031711001666 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1031711001667 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1031711001668 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1031711001669 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1031711001670 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1031711001671 glutamine binding [chemical binding]; other site 1031711001672 catalytic triad [active] 1031711001673 anthranilate synthase component I; Provisional; Region: PRK13565 1031711001674 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1031711001675 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1031711001676 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1031711001677 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 1031711001678 motif II; other site 1031711001679 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 1031711001680 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1031711001681 substrate binding site [chemical binding]; other site 1031711001682 hexamer interface [polypeptide binding]; other site 1031711001683 metal binding site [ion binding]; metal-binding site 1031711001684 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1031711001685 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1031711001686 MltA specific insert domain; Region: MltA; smart00925 1031711001687 3D domain; Region: 3D; pfam06725 1031711001688 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711001689 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1031711001690 acyl-activating enzyme (AAE) consensus motif; other site 1031711001691 AMP binding site [chemical binding]; other site 1031711001692 active site 1031711001693 CoA binding site [chemical binding]; other site 1031711001694 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 1031711001695 CoenzymeA binding site [chemical binding]; other site 1031711001696 subunit interaction site [polypeptide binding]; other site 1031711001697 PHB binding site; other site 1031711001698 enoyl-CoA hydratase; Provisional; Region: PRK08140 1031711001699 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 1031711001700 substrate binding site [chemical binding]; other site 1031711001701 oxyanion hole (OAH) forming residues; other site 1031711001702 trimer interface [polypeptide binding]; other site 1031711001703 enoyl-CoA hydratase; Provisional; Region: PRK05862 1031711001704 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 1031711001705 substrate binding site [chemical binding]; other site 1031711001706 oxyanion hole (OAH) forming residues; other site 1031711001707 trimer interface [polypeptide binding]; other site 1031711001708 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1031711001709 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1031711001710 metal binding site [ion binding]; metal-binding site 1031711001711 putative dimer interface [polypeptide binding]; other site 1031711001712 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1031711001713 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_2; cd08498 1031711001714 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1031711001715 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 1031711001716 dimer interface [polypeptide binding]; other site 1031711001717 conserved gate region; other site 1031711001718 putative PBP binding loops; other site 1031711001719 ABC-ATPase subunit interface; other site 1031711001720 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1031711001721 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 1031711001722 dimer interface [polypeptide binding]; other site 1031711001723 conserved gate region; other site 1031711001724 putative PBP binding loops; other site 1031711001725 ABC-ATPase subunit interface; other site 1031711001726 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1031711001727 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711001728 Walker A/P-loop; other site 1031711001729 ATP binding site [chemical binding]; other site 1031711001730 Q-loop/lid; other site 1031711001731 ABC transporter signature motif; other site 1031711001732 Walker B; other site 1031711001733 D-loop; other site 1031711001734 H-loop/switch region; other site 1031711001735 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1031711001736 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1031711001737 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711001738 Walker A/P-loop; other site 1031711001739 ATP binding site [chemical binding]; other site 1031711001740 Q-loop/lid; other site 1031711001741 ABC transporter signature motif; other site 1031711001742 Walker B; other site 1031711001743 D-loop; other site 1031711001744 H-loop/switch region; other site 1031711001745 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1031711001746 acetylornithine deacetylase; Provisional; Region: PRK07522 1031711001747 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1031711001748 metal binding site [ion binding]; metal-binding site 1031711001749 putative dimer interface [polypeptide binding]; other site 1031711001750 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711001751 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711001752 putative ligand binding site [chemical binding]; other site 1031711001753 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1031711001754 active site 1031711001755 P-loop; other site 1031711001756 phosphorylation site [posttranslational modification] 1031711001757 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1031711001758 active site 1031711001759 P-loop; other site 1031711001760 phosphorylation site [posttranslational modification] 1031711001761 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1031711001762 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1031711001763 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1031711001764 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1031711001765 putative substrate binding site [chemical binding]; other site 1031711001766 putative ATP binding site [chemical binding]; other site 1031711001767 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1031711001768 active site 1031711001769 phosphorylation site [posttranslational modification] 1031711001770 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1031711001771 dimerization domain swap beta strand [polypeptide binding]; other site 1031711001772 regulatory protein interface [polypeptide binding]; other site 1031711001773 active site 1031711001774 regulatory phosphorylation site [posttranslational modification]; other site 1031711001775 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1031711001776 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1031711001777 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1031711001778 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1031711001779 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711001780 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711001781 DNA binding site [nucleotide binding] 1031711001782 domain linker motif; other site 1031711001783 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 1031711001784 putative dimerization interface [polypeptide binding]; other site 1031711001785 putative ligand binding site [chemical binding]; other site 1031711001786 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1031711001787 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 1031711001788 putative [4Fe-4S] binding site [ion binding]; other site 1031711001789 putative molybdopterin cofactor binding site [chemical binding]; other site 1031711001790 The MopB_CT_3 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_3; cd02786 1031711001791 putative molybdopterin cofactor binding site; other site 1031711001792 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1031711001793 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1031711001794 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1031711001795 acyl-activating enzyme (AAE) consensus motif; other site 1031711001796 putative AMP binding site [chemical binding]; other site 1031711001797 putative active site [active] 1031711001798 putative CoA binding site [chemical binding]; other site 1031711001799 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 1031711001800 metabolite-proton symporter; Region: 2A0106; TIGR00883 1031711001801 putative substrate translocation pore; other site 1031711001802 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711001803 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711001804 trimer interface [polypeptide binding]; other site 1031711001805 eyelet of channel; other site 1031711001806 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1031711001807 diiron binding motif [ion binding]; other site 1031711001808 cell division protein MraZ; Reviewed; Region: PRK00326 1031711001809 MraZ protein; Region: MraZ; pfam02381 1031711001810 MraZ protein; Region: MraZ; pfam02381 1031711001811 MraW methylase family; Region: Methyltransf_5; cl17771 1031711001812 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1031711001813 Cell division protein FtsL; Region: FtsL; cl11433 1031711001814 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1031711001815 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1031711001816 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1031711001817 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1031711001818 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1031711001819 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711001820 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1031711001821 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1031711001822 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1031711001823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711001824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1031711001825 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1031711001826 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 1031711001827 Mg++ binding site [ion binding]; other site 1031711001828 putative catalytic motif [active] 1031711001829 putative substrate binding site [chemical binding]; other site 1031711001830 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1031711001831 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711001832 cell division protein FtsW; Region: ftsW; TIGR02614 1031711001833 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1031711001834 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 1031711001835 active site 1031711001836 homodimer interface [polypeptide binding]; other site 1031711001837 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1031711001838 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1031711001839 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711001840 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1031711001841 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1031711001842 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1031711001843 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1031711001844 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1031711001845 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1031711001846 Cell division protein FtsQ; Region: FtsQ; pfam03799 1031711001847 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1031711001848 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1031711001849 nucleotide binding site [chemical binding]; other site 1031711001850 Cell division protein FtsA; Region: FtsA; pfam14450 1031711001851 cell division protein FtsZ; Validated; Region: PRK09330 1031711001852 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 1031711001853 nucleotide binding site [chemical binding]; other site 1031711001854 SulA interaction site; other site 1031711001855 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1031711001856 catalytic triad [active] 1031711001857 dimer interface [polypeptide binding]; other site 1031711001858 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1031711001859 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1031711001860 Protein of unknown function (DUF721); Region: DUF721; cl02324 1031711001861 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1031711001862 Peptidase family M23; Region: Peptidase_M23; pfam01551 1031711001863 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1031711001864 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1031711001865 SEC-C motif; Region: SEC-C; pfam02810 1031711001866 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 1031711001867 heterotetramer interface [polypeptide binding]; other site 1031711001868 active site pocket [active] 1031711001869 cleavage site 1031711001870 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1031711001871 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 1031711001872 Walker A motif; other site 1031711001873 ATP binding site [chemical binding]; other site 1031711001874 Walker B motif; other site 1031711001875 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 1031711001876 active site 1031711001877 8-oxo-dGMP binding site [chemical binding]; other site 1031711001878 nudix motif; other site 1031711001879 metal binding site [ion binding]; metal-binding site 1031711001880 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1031711001881 hypothetical protein; Provisional; Region: PRK05287 1031711001882 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1031711001883 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 1031711001884 CoA-binding site [chemical binding]; other site 1031711001885 ATP-binding [chemical binding]; other site 1031711001886 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 1031711001887 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1031711001888 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1031711001889 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1031711001890 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711001891 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711001892 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1031711001893 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1031711001894 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 1031711001895 Walker A motif; other site 1031711001896 ATP binding site [chemical binding]; other site 1031711001897 Walker B motif; other site 1031711001898 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1031711001899 Domain of unknown function DUF21; Region: DUF21; pfam01595 1031711001900 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 1031711001901 Transporter associated domain; Region: CorC_HlyC; smart01091 1031711001902 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1031711001903 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1031711001904 substrate binding pocket [chemical binding]; other site 1031711001905 chain length determination region; other site 1031711001906 substrate-Mg2+ binding site; other site 1031711001907 catalytic residues [active] 1031711001908 aspartate-rich region 1; other site 1031711001909 active site lid residues [active] 1031711001910 aspartate-rich region 2; other site 1031711001911 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1031711001912 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1031711001913 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1031711001914 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1031711001915 GTP1/OBG; Region: GTP1_OBG; pfam01018 1031711001916 Obg GTPase; Region: Obg; cd01898 1031711001917 G1 box; other site 1031711001918 GTP/Mg2+ binding site [chemical binding]; other site 1031711001919 Switch I region; other site 1031711001920 G2 box; other site 1031711001921 G3 box; other site 1031711001922 Switch II region; other site 1031711001923 G4 box; other site 1031711001924 G5 box; other site 1031711001925 gamma-glutamyl kinase; Provisional; Region: PRK05429 1031711001926 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 1031711001927 nucleotide binding site [chemical binding]; other site 1031711001928 homotetrameric interface [polypeptide binding]; other site 1031711001929 putative phosphate binding site [ion binding]; other site 1031711001930 putative allosteric binding site; other site 1031711001931 PUA domain; Region: PUA; pfam01472 1031711001932 CNP1-like family; Region: CNP1; pfam08750 1031711001933 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1031711001934 putative active site [active] 1031711001935 Ap4A binding site [chemical binding]; other site 1031711001936 nudix motif; other site 1031711001937 putative metal binding site [ion binding]; other site 1031711001938 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1031711001939 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 1031711001940 dimer interface [polypeptide binding]; other site 1031711001941 motif 1; other site 1031711001942 active site 1031711001943 motif 2; other site 1031711001944 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 1031711001945 putative deacylase active site [active] 1031711001946 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 1031711001947 active site 1031711001948 motif 3; other site 1031711001949 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 1031711001950 anticodon binding site; other site 1031711001951 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711001952 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 1031711001953 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711001954 catalytic residue [active] 1031711001955 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1031711001956 MarC family integral membrane protein; Region: MarC; cl00919 1031711001957 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711001958 active site 1031711001959 signal recognition particle protein; Provisional; Region: PRK10867 1031711001960 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1031711001961 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 1031711001962 P loop; other site 1031711001963 GTP binding site [chemical binding]; other site 1031711001964 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1031711001965 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1031711001966 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 1031711001967 putative active site [active] 1031711001968 heme pocket [chemical binding]; other site 1031711001969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711001970 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 1031711001971 dimer interface [polypeptide binding]; other site 1031711001972 phosphorylation site [posttranslational modification] 1031711001973 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 1031711001974 ATP binding site [chemical binding]; other site 1031711001975 Mg2+ binding site [ion binding]; other site 1031711001976 G-X-G motif; other site 1031711001977 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711001978 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 1031711001979 active site 1031711001980 phosphorylation site [posttranslational modification] 1031711001981 intermolecular recognition site; other site 1031711001982 dimerization interface [polypeptide binding]; other site 1031711001983 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 1031711001984 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1031711001985 Walker A motif; other site 1031711001986 ATP binding site [chemical binding]; other site 1031711001987 Walker B motif; other site 1031711001988 arginine finger; other site 1031711001989 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711001990 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1031711001991 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 1031711001992 amidase catalytic site [active] 1031711001993 Zn binding residues [ion binding]; other site 1031711001994 substrate binding site [chemical binding]; other site 1031711001995 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1031711001996 ATP cone domain; Region: ATP-cone; pfam03477 1031711001997 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1031711001998 active site 1031711001999 dimer interface [polypeptide binding]; other site 1031711002000 catalytic residues [active] 1031711002001 effector binding site; other site 1031711002002 R2 peptide binding site; other site 1031711002003 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1031711002004 dimer interface [polypeptide binding]; other site 1031711002005 putative radical transfer pathway; other site 1031711002006 diiron center [ion binding]; other site 1031711002007 tyrosyl radical; other site 1031711002008 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1031711002009 putative active site [active] 1031711002010 Zn binding site [ion binding]; other site 1031711002011 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1031711002012 EamA-like transporter family; Region: EamA; pfam00892 1031711002013 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711002014 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1031711002015 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711002016 Cache domain; Region: Cache_2; pfam08269 1031711002017 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711002018 dimer interface [polypeptide binding]; other site 1031711002019 putative CheW interface [polypeptide binding]; other site 1031711002020 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1031711002021 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1031711002022 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1031711002023 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1031711002024 substrate binding site [chemical binding]; other site 1031711002025 ATP binding site [chemical binding]; other site 1031711002026 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1031711002027 dimer interface [polypeptide binding]; other site 1031711002028 catalytic triad [active] 1031711002029 peroxidatic and resolving cysteines [active] 1031711002030 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1031711002031 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1031711002032 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1031711002033 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 1031711002034 S-adenosylmethionine binding site [chemical binding]; other site 1031711002035 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1031711002036 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1031711002037 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1031711002038 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1031711002039 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1031711002040 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 1031711002041 carboxyltransferase (CT) interaction site; other site 1031711002042 biotinylation site [posttranslational modification]; other site 1031711002043 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 1031711002044 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1031711002045 trimer interface [polypeptide binding]; other site 1031711002046 active site 1031711002047 dimer interface [polypeptide binding]; other site 1031711002048 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 1031711002049 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711002050 catalytic residues [active] 1031711002051 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1031711002052 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1031711002053 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711002054 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1031711002055 Predicted esterase [General function prediction only]; Region: COG3150 1031711002056 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711002057 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 1031711002058 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1031711002059 RNB domain; Region: RNB; pfam00773 1031711002060 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1031711002061 TonB C terminal; Region: TonB_2; pfam13103 1031711002062 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1031711002063 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1031711002064 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1031711002065 shikimate binding site; other site 1031711002066 NAD(P) binding site [chemical binding]; other site 1031711002067 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1031711002068 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 1031711002069 Pectate lyase; Region: Pectate_lyase; pfam03211 1031711002070 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1031711002071 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1031711002072 Cl binding site [ion binding]; other site 1031711002073 oligomer interface [polypeptide binding]; other site 1031711002074 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 1031711002075 active site 1031711002076 dimer interface [polypeptide binding]; other site 1031711002077 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1031711002078 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1031711002079 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1031711002080 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1031711002081 tetramer interfaces [polypeptide binding]; other site 1031711002082 binuclear metal-binding site [ion binding]; other site 1031711002083 thiamine monophosphate kinase; Provisional; Region: PRK05731 1031711002084 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1031711002085 ATP binding site [chemical binding]; other site 1031711002086 dimerization interface [polypeptide binding]; other site 1031711002087 malic enzyme; Reviewed; Region: PRK12862 1031711002088 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1031711002089 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1031711002090 putative NAD(P) binding site [chemical binding]; other site 1031711002091 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1031711002092 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1031711002093 active site 1031711002094 barstar interaction site; other site 1031711002095 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1031711002096 putative RNAase interaction site [polypeptide binding]; other site 1031711002097 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1031711002098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1031711002099 RNA methyltransferase, RsmE family; Region: TIGR00046 1031711002100 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_8; cd07246 1031711002101 putative dimer interface [polypeptide binding]; other site 1031711002102 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711002103 transketolase; Reviewed; Region: PRK12753 1031711002104 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 1031711002105 TPP-binding site [chemical binding]; other site 1031711002106 dimer interface [polypeptide binding]; other site 1031711002107 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 1031711002108 PYR/PP interface [polypeptide binding]; other site 1031711002109 dimer interface [polypeptide binding]; other site 1031711002110 TPP binding site [chemical binding]; other site 1031711002111 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1031711002112 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1031711002113 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1031711002114 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1031711002115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711002116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002117 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1031711002118 putative substrate binding pocket [chemical binding]; other site 1031711002119 putative dimerization interface [polypeptide binding]; other site 1031711002120 ferric uptake regulator; Provisional; Region: fur; PRK09462 1031711002121 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1031711002122 metal binding site 2 [ion binding]; metal-binding site 1031711002123 putative DNA binding helix; other site 1031711002124 metal binding site 1 [ion binding]; metal-binding site 1031711002125 dimer interface [polypeptide binding]; other site 1031711002126 structural Zn2+ binding site [ion binding]; other site 1031711002127 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1031711002128 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1031711002129 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1031711002130 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1031711002131 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1031711002132 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1031711002133 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1031711002134 HIGH motif; other site 1031711002135 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1031711002136 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711002137 active site 1031711002138 KMSKS motif; other site 1031711002139 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1031711002140 tRNA binding surface [nucleotide binding]; other site 1031711002141 Lipopolysaccharide-assembly; Region: LptE; cl01125 1031711002142 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1031711002143 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1031711002144 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1031711002145 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1031711002146 putative catalytic cysteine [active] 1031711002147 Predicted membrane protein [Function unknown]; Region: COG1981 1031711002148 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1031711002149 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1031711002150 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 1031711002151 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 1031711002152 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711002153 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 1031711002154 active site 1031711002155 phosphorylation site [posttranslational modification] 1031711002156 intermolecular recognition site; other site 1031711002157 dimerization interface [polypeptide binding]; other site 1031711002158 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711002159 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 1031711002160 active site 1031711002161 phosphorylation site [posttranslational modification] 1031711002162 intermolecular recognition site; other site 1031711002163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711002164 dimerization interface [polypeptide binding]; other site 1031711002165 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 1031711002166 dimer interface [polypeptide binding]; other site 1031711002167 phosphorylation site [posttranslational modification] 1031711002168 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 1031711002169 ATP binding site [chemical binding]; other site 1031711002170 Mg2+ binding site [ion binding]; other site 1031711002171 G-X-G motif; other site 1031711002172 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711002173 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 1031711002174 dimer interface [polypeptide binding]; other site 1031711002175 phosphorylation site [posttranslational modification] 1031711002176 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 1031711002177 ATP binding site [chemical binding]; other site 1031711002178 Mg2+ binding site [ion binding]; other site 1031711002179 G-X-G motif; other site 1031711002180 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 1031711002181 S-adenosylmethionine binding site [chemical binding]; other site 1031711002182 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 1031711002183 active site 1031711002184 phosphorylation site [posttranslational modification] 1031711002185 intermolecular recognition site; other site 1031711002186 dimerization interface [polypeptide binding]; other site 1031711002187 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1031711002188 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1031711002189 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1031711002190 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1031711002191 tetramerization interface [polypeptide binding]; other site 1031711002192 active site 1031711002193 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1031711002194 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1031711002195 ligand binding site [chemical binding]; other site 1031711002196 homodimer interface [polypeptide binding]; other site 1031711002197 NAD(P) binding site [chemical binding]; other site 1031711002198 trimer interface B [polypeptide binding]; other site 1031711002199 trimer interface A [polypeptide binding]; other site 1031711002200 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711002201 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711002202 N-terminal plug; other site 1031711002203 ligand-binding site [chemical binding]; other site 1031711002204 Predicted membrane protein [Function unknown]; Region: COG3503 1031711002205 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1031711002206 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 1031711002207 putative substrate translocation pore; other site 1031711002208 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711002209 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1031711002210 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711002211 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711002212 MarR family; Region: MarR_2; cl17246 1031711002213 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1031711002214 nudix motif; other site 1031711002215 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1031711002216 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 1031711002217 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1031711002218 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 1031711002219 active site 1031711002220 FMN binding site [chemical binding]; other site 1031711002221 substrate binding site [chemical binding]; other site 1031711002222 3Fe-4S cluster binding site [ion binding]; other site 1031711002223 putative glutathione S-transferase; Provisional; Region: PRK10357 1031711002224 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1031711002225 putative C-terminal domain interface [polypeptide binding]; other site 1031711002226 putative GSH binding site (G-site) [chemical binding]; other site 1031711002227 putative dimer interface [polypeptide binding]; other site 1031711002228 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1031711002229 dimer interface [polypeptide binding]; other site 1031711002230 N-terminal domain interface [polypeptide binding]; other site 1031711002231 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711002232 adenylosuccinate lyase; Provisional; Region: PRK09285 1031711002233 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1031711002234 tetramer interface [polypeptide binding]; other site 1031711002235 active site 1031711002236 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1031711002237 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1031711002238 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1031711002239 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1031711002240 Protein export membrane protein; Region: SecD_SecF; pfam02355 1031711002241 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1031711002242 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1031711002243 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1031711002244 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1031711002245 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1031711002246 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1031711002247 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1031711002248 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1031711002249 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1031711002250 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 1031711002251 generic binding surface II; other site 1031711002252 ssDNA binding site; other site 1031711002253 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 1031711002254 ATP binding site [chemical binding]; other site 1031711002255 putative Mg++ binding site [ion binding]; other site 1031711002256 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 1031711002257 nucleotide binding region [chemical binding]; other site 1031711002258 ATP-binding site [chemical binding]; other site 1031711002259 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1031711002260 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1031711002261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 1031711002262 dimer interface [polypeptide binding]; other site 1031711002263 active site 1031711002264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711002265 substrate binding site [chemical binding]; other site 1031711002266 catalytic residue [active] 1031711002267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711002268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002269 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 1031711002270 dimerization interface [polypeptide binding]; other site 1031711002271 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1031711002272 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 1031711002273 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1031711002274 putative ADP-binding pocket [chemical binding]; other site 1031711002275 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1031711002276 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1031711002277 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1031711002278 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1031711002279 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 1031711002280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711002281 catalytic residue [active] 1031711002282 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1031711002283 allantoate amidohydrolase; Reviewed; Region: PRK12890 1031711002284 active site 1031711002285 metal binding site [ion binding]; metal-binding site 1031711002286 dimer interface [polypeptide binding]; other site 1031711002287 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711002288 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 1031711002289 putative DNA binding site [nucleotide binding]; other site 1031711002290 putative Zn2+ binding site [ion binding]; other site 1031711002291 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711002292 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1031711002293 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1031711002294 metal binding site [ion binding]; metal-binding site 1031711002295 putative dimer interface [polypeptide binding]; other site 1031711002296 aromatic amino acid exporter; Provisional; Region: PRK11689 1031711002297 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1031711002298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711002299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002300 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1031711002301 dimerization interface [polypeptide binding]; other site 1031711002302 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1031711002303 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1031711002304 dimerization interface [polypeptide binding]; other site 1031711002305 DPS ferroxidase diiron center [ion binding]; other site 1031711002306 ion pore; other site 1031711002307 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1031711002308 UbiA prenyltransferase family; Region: UbiA; pfam01040 1031711002309 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1031711002310 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1031711002311 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1031711002312 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711002313 catalytic residue [active] 1031711002314 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1031711002315 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 1031711002316 Walker A motif; other site 1031711002317 ATP binding site [chemical binding]; other site 1031711002318 Walker B motif; other site 1031711002319 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1031711002320 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 1031711002321 Walker A motif; other site 1031711002322 ATP binding site [chemical binding]; other site 1031711002323 Walker B motif; other site 1031711002324 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1031711002325 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1031711002326 Type II transport protein GspH; Region: GspH; pfam12019 1031711002327 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1031711002328 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1031711002329 PilX N-terminal; Region: PilX_N; pfam14341 1031711002330 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1031711002331 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1031711002332 catalytic residues [active] 1031711002333 dimer interface [polypeptide binding]; other site 1031711002334 Predicted transcriptional regulator [Transcription]; Region: COG2378 1031711002335 HTH domain; Region: HTH_11; pfam08279 1031711002336 WYL domain; Region: WYL; pfam13280 1031711002337 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 1031711002338 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1031711002339 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711002340 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1031711002341 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1031711002342 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1031711002343 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 1031711002344 Cysteine-rich domain; Region: CCG; pfam02754 1031711002345 Cysteine-rich domain; Region: CCG; pfam02754 1031711002346 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1031711002347 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711002348 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1031711002349 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711002350 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711002351 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711002352 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 1031711002353 mechanosensitive channel MscS; Provisional; Region: PRK10334 1031711002354 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1031711002355 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711002356 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 1031711002357 non-specific DNA binding site [nucleotide binding]; other site 1031711002358 salt bridge; other site 1031711002359 sequence-specific DNA binding site [nucleotide binding]; other site 1031711002360 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1031711002361 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1031711002362 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1031711002363 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1031711002364 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1031711002365 protease TldD; Provisional; Region: tldD; PRK10735 1031711002366 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1031711002367 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1031711002368 putative active site [active] 1031711002369 catalytic triad [active] 1031711002370 dimer interface [polypeptide binding]; other site 1031711002371 Predicted membrane protein [Function unknown]; Region: COG3164 1031711002372 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1031711002373 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1031711002374 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1031711002375 metal binding triad; other site 1031711002376 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1031711002377 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1031711002378 metal binding triad; other site 1031711002379 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1031711002380 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1031711002381 active site 1031711002382 catalytic triad [active] 1031711002383 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1031711002384 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1031711002385 active site 1031711002386 catalytic triad [active] 1031711002387 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1031711002388 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1031711002389 Walker A/P-loop; other site 1031711002390 ATP binding site [chemical binding]; other site 1031711002391 Q-loop/lid; other site 1031711002392 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1031711002393 ABC transporter signature motif; other site 1031711002394 Walker B; other site 1031711002395 D-loop; other site 1031711002396 H-loop/switch region; other site 1031711002397 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 1031711002398 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1031711002399 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1031711002400 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1031711002401 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1031711002402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711002403 DNA-binding site [nucleotide binding]; DNA binding site 1031711002404 UTRA domain; Region: UTRA; pfam07702 1031711002405 urocanate hydratase; Provisional; Region: PRK05414 1031711002406 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1031711002407 active sites [active] 1031711002408 tetramer interface [polypeptide binding]; other site 1031711002409 formimidoylglutamase; Provisional; Region: PRK13775 1031711002410 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1031711002411 putative active site [active] 1031711002412 putative metal binding site [ion binding]; other site 1031711002413 imidazolonepropionase; Validated; Region: PRK09356 1031711002414 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1031711002415 active site 1031711002416 ferrochelatase; Reviewed; Region: hemH; PRK00035 1031711002417 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1031711002418 C-terminal domain interface [polypeptide binding]; other site 1031711002419 active site 1031711002420 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1031711002421 active site 1031711002422 N-terminal domain interface [polypeptide binding]; other site 1031711002423 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 1031711002424 RNA binding surface [nucleotide binding]; other site 1031711002425 GrpE; Region: GrpE; pfam01025 1031711002426 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 1031711002427 dimer interface [polypeptide binding]; other site 1031711002428 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1031711002429 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 1031711002430 catalytic residues [active] 1031711002431 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1031711002432 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1031711002433 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1031711002434 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1031711002435 nucleotide binding site [chemical binding]; other site 1031711002436 chaperone protein DnaJ; Provisional; Region: PRK10767 1031711002437 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 1031711002438 HSP70 interaction site [polypeptide binding]; other site 1031711002439 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1031711002440 Zn binding sites [ion binding]; other site 1031711002441 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1031711002442 dimer interface [polypeptide binding]; other site 1031711002443 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1031711002444 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1031711002445 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1031711002446 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1031711002447 homodimer interface [polypeptide binding]; other site 1031711002448 substrate-cofactor binding pocket; other site 1031711002449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711002450 catalytic residue [active] 1031711002451 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1031711002452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711002453 Walker A/P-loop; other site 1031711002454 ATP binding site [chemical binding]; other site 1031711002455 Q-loop/lid; other site 1031711002456 ABC transporter signature motif; other site 1031711002457 Walker B; other site 1031711002458 D-loop; other site 1031711002459 H-loop/switch region; other site 1031711002460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1031711002461 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 1031711002462 oligomerization interface [polypeptide binding]; other site 1031711002463 active site 1031711002464 metal binding site [ion binding]; metal-binding site 1031711002465 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1031711002466 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1031711002467 Substrate-binding site [chemical binding]; other site 1031711002468 Substrate specificity [chemical binding]; other site 1031711002469 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 1031711002470 catalytic center binding site [active] 1031711002471 ATP binding site [chemical binding]; other site 1031711002472 poly(A) polymerase; Region: pcnB; TIGR01942 1031711002473 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1031711002474 active site 1031711002475 NTP binding site [chemical binding]; other site 1031711002476 metal binding triad [ion binding]; metal-binding site 1031711002477 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1031711002478 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1031711002479 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1031711002480 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1031711002481 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1031711002482 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 1031711002483 Walker A motif; other site 1031711002484 ATP binding site [chemical binding]; other site 1031711002485 Walker B motif; other site 1031711002486 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 1031711002487 arginine finger; other site 1031711002488 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1031711002489 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1031711002490 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1031711002491 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 1031711002492 dimerization interface [polypeptide binding]; other site 1031711002493 putative ATP binding site [chemical binding]; other site 1031711002494 similar to truncated putative outer membrane protein H.8 precursor; RSPO_c00880 1031711002495 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1031711002496 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1031711002497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711002498 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1031711002499 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 1031711002500 DNA binding site [nucleotide binding] 1031711002501 active site 1031711002502 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1031711002503 endonuclease III; Region: ENDO3c; smart00478 1031711002504 minor groove reading motif; other site 1031711002505 helix-hairpin-helix signature motif; other site 1031711002506 substrate binding pocket [chemical binding]; other site 1031711002507 active site 1031711002508 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1031711002509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 1031711002510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1031711002511 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711002512 Coenzyme A binding pocket [chemical binding]; other site 1031711002513 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1031711002514 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1031711002515 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1031711002516 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 1031711002517 ATP binding site [chemical binding]; other site 1031711002518 Mg2+ binding site [ion binding]; other site 1031711002519 G-X-G motif; other site 1031711002520 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1031711002521 ATP binding site [chemical binding]; other site 1031711002522 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1031711002523 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1031711002524 mce related protein; Region: MCE; pfam02470 1031711002525 mce related protein; Region: MCE; pfam02470 1031711002526 mce related protein; Region: MCE; pfam02470 1031711002527 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1031711002528 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711002529 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711002530 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1031711002531 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1031711002532 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1031711002533 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1031711002534 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1031711002535 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1031711002536 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1031711002537 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1031711002538 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1031711002539 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1031711002540 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1031711002541 argininosuccinate synthase; Validated; Region: PRK05370 1031711002542 argininosuccinate synthase; Provisional; Region: PRK13820 1031711002543 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1031711002544 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1031711002545 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1031711002546 active site 1031711002547 nucleophile elbow; other site 1031711002548 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1031711002549 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711002550 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1031711002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1031711002552 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1031711002553 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1031711002554 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 1031711002555 putative deacylase active site [active] 1031711002556 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1031711002557 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 1031711002558 active site 1031711002559 DNA binding site [nucleotide binding] 1031711002560 Int/Topo IB signature motif; other site 1031711002561 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1031711002562 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 1031711002563 DNA binding site [nucleotide binding] 1031711002564 active site 1031711002565 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 1031711002566 Uncharacterized conserved protein [Function unknown]; Region: COG4715 1031711002567 SWIM zinc finger; Region: SWIM; pfam04434 1031711002568 epoxyqueuosine reductase; Region: TIGR00276 1031711002569 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1031711002570 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1031711002571 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1031711002572 AMIN domain; Region: AMIN; pfam11741 1031711002573 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 1031711002574 active site 1031711002575 metal binding site [ion binding]; metal-binding site 1031711002576 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1031711002577 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1031711002578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711002579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002580 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1031711002581 putative dimerization interface [polypeptide binding]; other site 1031711002582 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1031711002583 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1031711002584 NAD binding site [chemical binding]; other site 1031711002585 homodimer interface [polypeptide binding]; other site 1031711002586 homotetramer interface [polypeptide binding]; other site 1031711002587 active site 1031711002588 adenylate kinase; Reviewed; Region: adk; PRK00279 1031711002589 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 1031711002590 AMP-binding site [chemical binding]; other site 1031711002591 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1031711002592 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1031711002593 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1031711002594 Ligand binding site; other site 1031711002595 oligomer interface; other site 1031711002596 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1031711002597 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1031711002598 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1031711002599 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1031711002600 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1031711002601 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1031711002602 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1031711002603 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 1031711002604 generic binding surface II; other site 1031711002605 generic binding surface I; other site 1031711002606 superoxide dismutase; Provisional; Region: PRK10543 1031711002607 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1031711002608 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1031711002609 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1031711002610 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1031711002611 NAD(P) binding site [chemical binding]; other site 1031711002612 homotetramer interface [polypeptide binding]; other site 1031711002613 homodimer interface [polypeptide binding]; other site 1031711002614 active site 1031711002615 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1031711002616 active site 1031711002617 putative substrate binding region [chemical binding]; other site 1031711002618 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4714 1031711002619 HutD; Region: HutD; cl01532 1031711002620 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 1031711002621 IHF dimer interface [polypeptide binding]; other site 1031711002622 IHF - DNA interface [nucleotide binding]; other site 1031711002623 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1031711002624 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1031711002625 NAD binding site [chemical binding]; other site 1031711002626 active site 1031711002627 citrate-proton symporter; Provisional; Region: PRK15075 1031711002628 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 1031711002629 putative substrate translocation pore; other site 1031711002630 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1031711002631 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1031711002632 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 1031711002633 dimer interface [polypeptide binding]; other site 1031711002634 conserved gate region; other site 1031711002635 putative PBP binding loops; other site 1031711002636 ABC-ATPase subunit interface; other site 1031711002637 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1031711002638 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1031711002639 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711002640 Zn2+ binding site [ion binding]; other site 1031711002641 Mg2+ binding site [ion binding]; other site 1031711002642 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 1031711002643 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711002644 substrate binding pocket [chemical binding]; other site 1031711002645 membrane-bound complex binding site; other site 1031711002646 hinge residues; other site 1031711002647 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1031711002648 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1031711002649 HipA N-terminal domain; Region: Couple_hipA; cl11853 1031711002650 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1031711002651 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1031711002652 EamA-like transporter family; Region: EamA; pfam00892 1031711002653 EamA-like transporter family; Region: EamA; pfam00892 1031711002654 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711002655 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1031711002656 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1031711002657 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 1031711002658 DNA binding site [nucleotide binding] 1031711002659 active site 1031711002660 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1031711002661 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1031711002662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711002663 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1031711002664 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1031711002665 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1031711002666 minor groove reading motif; other site 1031711002667 helix-hairpin-helix signature motif; other site 1031711002668 substrate binding pocket [chemical binding]; other site 1031711002669 active site 1031711002670 glucose-1-dehydrogenase; Provisional; Region: PRK06947 1031711002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711002672 NAD(P) binding site [chemical binding]; other site 1031711002673 active site 1031711002674 Predicted metalloprotease [General function prediction only]; Region: COG2321 1031711002675 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1031711002676 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1031711002677 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1031711002678 dimer interface [polypeptide binding]; other site 1031711002679 active site 1031711002680 catalytic residue [active] 1031711002681 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1031711002682 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1031711002683 Predicted membrane protein [Function unknown]; Region: COG2259 1031711002684 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1031711002685 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 1031711002686 putative substrate translocation pore; other site 1031711002687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711002688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002689 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711002690 putative effector binding pocket; other site 1031711002691 dimerization interface [polypeptide binding]; other site 1031711002692 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1031711002693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002694 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 1031711002695 dimerization interface [polypeptide binding]; other site 1031711002696 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1031711002697 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1031711002698 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1031711002699 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1031711002700 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1031711002701 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711002702 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711002703 active site 1031711002704 metal binding site [ion binding]; metal-binding site 1031711002705 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711002706 isocitrate dehydrogenase; Validated; Region: PRK07362 1031711002707 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1031711002708 integrase; Provisional; Region: PRK09692 1031711002709 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1031711002710 active site 1031711002711 Int/Topo IB signature motif; other site 1031711002712 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1031711002713 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1031711002714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1031711002715 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1031711002716 active site 1031711002717 metal binding site [ion binding]; metal-binding site 1031711002718 interdomain interaction site; other site 1031711002719 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 1031711002720 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1031711002721 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1031711002722 RHS Repeat; Region: RHS_repeat; pfam05593 1031711002723 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1031711002724 RHS Repeat; Region: RHS_repeat; pfam05593 1031711002725 RHS Repeat; Region: RHS_repeat; cl11982 1031711002726 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1031711002727 RHS Repeat; Region: RHS_repeat; pfam05593 1031711002728 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1031711002729 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 1031711002730 DNA-binding site [nucleotide binding]; DNA binding site 1031711002731 RNA-binding motif; other site 1031711002732 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1031711002733 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1031711002734 Clp amino terminal domain; Region: Clp_N; pfam02861 1031711002735 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 1031711002736 Walker A motif; other site 1031711002737 ATP binding site [chemical binding]; other site 1031711002738 Walker B motif; other site 1031711002739 arginine finger; other site 1031711002740 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 1031711002741 Walker A motif; other site 1031711002742 ATP binding site [chemical binding]; other site 1031711002743 Walker B motif; other site 1031711002744 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1031711002745 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1031711002746 trimer interface [polypeptide binding]; other site 1031711002747 active site 1031711002748 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1031711002749 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1031711002750 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1031711002751 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1031711002752 Flavoprotein; Region: Flavoprotein; pfam02441 1031711002753 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1031711002754 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1031711002755 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 1031711002756 putative active site [active] 1031711002757 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1031711002758 lipoprotein signal peptidase; Provisional; Region: PRK14787 1031711002759 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1031711002760 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711002761 active site 1031711002762 HIGH motif; other site 1031711002763 nucleotide binding site [chemical binding]; other site 1031711002764 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1031711002765 active site 1031711002766 KMSKS motif; other site 1031711002767 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1031711002768 tRNA binding surface [nucleotide binding]; other site 1031711002769 anticodon binding site; other site 1031711002770 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1031711002771 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1031711002772 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1031711002773 active site 1031711002774 Riboflavin kinase; Region: Flavokinase; smart00904 1031711002775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711002776 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 1031711002777 ATP binding site [chemical binding]; other site 1031711002778 Mg2+ binding site [ion binding]; other site 1031711002779 G-X-G motif; other site 1031711002780 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711002781 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 1031711002782 active site 1031711002783 phosphorylation site [posttranslational modification] 1031711002784 intermolecular recognition site; other site 1031711002785 dimerization interface [polypeptide binding]; other site 1031711002786 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711002787 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 1031711002788 active site 1031711002789 phosphorylation site [posttranslational modification] 1031711002790 intermolecular recognition site; other site 1031711002791 dimerization interface [polypeptide binding]; other site 1031711002792 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 1031711002793 DNA binding residues [nucleotide binding] 1031711002794 dimerization interface [polypeptide binding]; other site 1031711002795 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1031711002796 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1031711002797 active site 1031711002798 substrate binding site [chemical binding]; other site 1031711002799 cosubstrate binding site; other site 1031711002800 catalytic site [active] 1031711002801 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 1031711002802 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 1031711002803 S-adenosylmethionine binding site [chemical binding]; other site 1031711002804 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1031711002805 PLD-like domain; Region: PLDc_2; pfam13091 1031711002806 putative active site [active] 1031711002807 catalytic site [active] 1031711002808 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1031711002809 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1031711002810 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1031711002811 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1031711002812 Di-iron ligands [ion binding]; other site 1031711002813 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1031711002814 quinolinate synthetase; Provisional; Region: PRK09375 1031711002815 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1031711002816 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 1031711002817 dimerization interface [polypeptide binding]; other site 1031711002818 active site 1031711002819 L-aspartate oxidase; Provisional; Region: PRK09077 1031711002820 L-aspartate oxidase; Provisional; Region: PRK06175 1031711002821 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1031711002822 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1031711002823 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1031711002824 hypothetical protein; Reviewed; Region: PRK00024 1031711002825 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1031711002826 MPN+ (JAMM) motif; other site 1031711002827 Zinc-binding site [ion binding]; other site 1031711002828 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1031711002829 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1031711002830 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1031711002831 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1031711002832 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711002833 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1031711002834 dimerization interface [polypeptide binding]; other site 1031711002835 ligand binding site [chemical binding]; other site 1031711002836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711002837 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 1031711002838 TM-ABC transporter signature motif; other site 1031711002839 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711002840 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 1031711002841 TM-ABC transporter signature motif; other site 1031711002842 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711002843 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711002844 Walker A/P-loop; other site 1031711002845 ATP binding site [chemical binding]; other site 1031711002846 Q-loop/lid; other site 1031711002847 ABC transporter signature motif; other site 1031711002848 Walker B; other site 1031711002849 D-loop; other site 1031711002850 H-loop/switch region; other site 1031711002851 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711002852 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711002853 Walker A/P-loop; other site 1031711002854 ATP binding site [chemical binding]; other site 1031711002855 Q-loop/lid; other site 1031711002856 ABC transporter signature motif; other site 1031711002857 Walker B; other site 1031711002858 D-loop; other site 1031711002859 H-loop/switch region; other site 1031711002860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711002861 Coenzyme A binding pocket [chemical binding]; other site 1031711002862 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1031711002863 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 1031711002864 inhibitor-cofactor binding pocket; inhibition site 1031711002865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711002866 catalytic residue [active] 1031711002867 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1031711002868 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 1031711002869 catalytic loop [active] 1031711002870 iron binding site [ion binding]; other site 1031711002871 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1031711002872 FAD binding pocket [chemical binding]; other site 1031711002873 FAD binding motif [chemical binding]; other site 1031711002874 phosphate binding motif [ion binding]; other site 1031711002875 beta-alpha-beta structure motif; other site 1031711002876 NAD binding pocket [chemical binding]; other site 1031711002877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711002878 NAD(P) binding site [chemical binding]; other site 1031711002879 active site 1031711002880 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1031711002881 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1031711002882 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711002883 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711002884 metal binding site [ion binding]; metal-binding site 1031711002885 active site 1031711002886 I-site; other site 1031711002887 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1031711002888 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1031711002889 Cl- selectivity filter; other site 1031711002890 Cl- binding residues [ion binding]; other site 1031711002891 pore gating glutamate residue; other site 1031711002892 dimer interface [polypeptide binding]; other site 1031711002893 FOG: CBS domain [General function prediction only]; Region: COG0517 1031711002894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1031711002895 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711002896 MarR family; Region: MarR_2; pfam12802 1031711002897 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1031711002898 Cytochrome c; Region: Cytochrom_C; cl11414 1031711002899 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1031711002900 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1031711002901 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711002902 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1031711002903 putative ligand binding site [chemical binding]; other site 1031711002904 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1031711002905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002906 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1031711002907 substrate binding site [chemical binding]; other site 1031711002908 dimerization interface [polypeptide binding]; other site 1031711002909 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711002910 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1031711002911 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1031711002912 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1031711002913 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 1031711002914 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1031711002915 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 1031711002916 Active Sites [active] 1031711002917 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1031711002918 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 1031711002919 Active Sites [active] 1031711002920 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1031711002921 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1031711002922 CysD dimerization site [polypeptide binding]; other site 1031711002923 G1 box; other site 1031711002924 putative GEF interaction site [polypeptide binding]; other site 1031711002925 GTP/Mg2+ binding site [chemical binding]; other site 1031711002926 Switch I region; other site 1031711002927 G2 box; other site 1031711002928 G3 box; other site 1031711002929 Switch II region; other site 1031711002930 G4 box; other site 1031711002931 G5 box; other site 1031711002932 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 1031711002933 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 1031711002934 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1031711002935 active site 1031711002936 SAM binding site [chemical binding]; other site 1031711002937 homodimer interface [polypeptide binding]; other site 1031711002938 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1031711002939 putative substrate binding pocket [chemical binding]; other site 1031711002940 trimer interface [polypeptide binding]; other site 1031711002941 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 1031711002942 putative active site [active] 1031711002943 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1031711002944 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1031711002945 Predicted permeases [General function prediction only]; Region: COG0795 1031711002946 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1031711002947 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1031711002948 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1031711002949 interface (dimer of trimers) [polypeptide binding]; other site 1031711002950 Substrate-binding/catalytic site; other site 1031711002951 Zn-binding sites [ion binding]; other site 1031711002952 DNA polymerase III subunit chi; Validated; Region: PRK05728 1031711002953 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1031711002954 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1031711002955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711002956 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 1031711002957 putative dimerization interface [polypeptide binding]; other site 1031711002958 putative substrate binding pocket [chemical binding]; other site 1031711002959 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1031711002960 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1031711002961 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1031711002962 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1031711002963 Cell division protein ZapA; Region: ZapA; pfam05164 1031711002964 Domain of unknown function (DUF1875); Region: DUF1875; pfam08961 1031711002965 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1031711002966 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711002967 N-terminal plug; other site 1031711002968 ligand-binding site [chemical binding]; other site 1031711002969 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1031711002970 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 1031711002971 dimer interface [polypeptide binding]; other site 1031711002972 putative PBP binding regions; other site 1031711002973 ABC-ATPase subunit interface; other site 1031711002974 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1031711002975 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1031711002976 Walker A/P-loop; other site 1031711002977 ATP binding site [chemical binding]; other site 1031711002978 Q-loop/lid; other site 1031711002979 ABC transporter signature motif; other site 1031711002980 Walker B; other site 1031711002981 D-loop; other site 1031711002982 H-loop/switch region; other site 1031711002983 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 1031711002984 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1031711002985 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1031711002986 putative dimer interface [polypeptide binding]; other site 1031711002987 active site pocket [active] 1031711002988 putative cataytic base [active] 1031711002989 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1031711002990 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 1031711002991 catalytic core [active] 1031711002992 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1031711002993 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1031711002994 cobalamin binding residues [chemical binding]; other site 1031711002995 putative BtuC binding residues; other site 1031711002996 dimer interface [polypeptide binding]; other site 1031711002997 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 1031711002998 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1031711002999 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711003000 catalytic residue [active] 1031711003001 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1031711003002 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 1031711003003 homotrimer interface [polypeptide binding]; other site 1031711003004 Walker A motif; other site 1031711003005 GTP binding site [chemical binding]; other site 1031711003006 Walker B motif; other site 1031711003007 cobyric acid synthase; Provisional; Region: PRK00784 1031711003008 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1031711003009 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1031711003010 catalytic triad [active] 1031711003011 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1031711003012 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 1031711003013 P-loop; other site 1031711003014 Magnesium ion binding site [ion binding]; other site 1031711003015 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 1031711003016 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1031711003017 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1031711003018 active site 1031711003019 ATP-binding site [chemical binding]; other site 1031711003020 pantoate-binding site; other site 1031711003021 HXXH motif; other site 1031711003022 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1031711003023 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1031711003024 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1031711003025 Surface antigen; Region: Bac_surface_Ag; pfam01103 1031711003026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1031711003027 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1031711003028 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1031711003029 Family of unknown function (DUF490); Region: DUF490; pfam04357 1031711003030 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1031711003031 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1031711003032 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1031711003033 active site 1031711003034 HIGH motif; other site 1031711003035 KMSKS motif; other site 1031711003036 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1031711003037 tRNA binding surface [nucleotide binding]; other site 1031711003038 anticodon binding site; other site 1031711003039 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 1031711003040 dimer interface [polypeptide binding]; other site 1031711003041 putative tRNA-binding site [nucleotide binding]; other site 1031711003042 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1031711003043 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711003044 ligand binding site [chemical binding]; other site 1031711003045 Domain of unknown function DUF59; Region: DUF59; pfam01883 1031711003046 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1031711003047 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 1031711003048 Walker A motif; other site 1031711003049 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 1031711003050 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 1031711003051 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1031711003052 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711003053 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1031711003054 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711003055 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 1031711003056 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1031711003057 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1031711003058 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 1031711003059 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1031711003060 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_Formate-Dh-Na-like; cd02752 1031711003061 [4Fe-4S] binding site [ion binding]; other site 1031711003062 molybdopterin cofactor binding site; other site 1031711003063 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 1031711003064 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1031711003065 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 1031711003066 molybdopterin cofactor binding site; other site 1031711003067 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1031711003068 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1031711003069 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1031711003070 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1031711003071 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1031711003072 E-class dimer interface [polypeptide binding]; other site 1031711003073 P-class dimer interface [polypeptide binding]; other site 1031711003074 active site 1031711003075 Cu2+ binding site [ion binding]; other site 1031711003076 Zn2+ binding site [ion binding]; other site 1031711003077 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1031711003078 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1031711003079 trimer interface [polypeptide binding]; other site 1031711003080 active site 1031711003081 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1031711003082 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1031711003083 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 1031711003084 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711003085 catalytic residue [active] 1031711003086 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1031711003087 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1031711003088 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1031711003089 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 1031711003090 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 1031711003091 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1031711003092 CT1975-like protein; Region: Cas_CT1975; pfam09344 1031711003093 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1031711003094 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 1031711003095 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1031711003096 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 1031711003097 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 1031711003098 argininosuccinate lyase; Provisional; Region: PRK00855 1031711003099 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1031711003100 active sites [active] 1031711003101 tetramer interface [polypeptide binding]; other site 1031711003102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1031711003103 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1031711003104 RNA polymerase sigma factor; Provisional; Region: PRK12514 1031711003105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711003106 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 1031711003107 DNA binding residues [nucleotide binding] 1031711003108 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1031711003109 dinuclear metal binding motif [ion binding]; other site 1031711003110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711003111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711003112 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1031711003113 dimerization interface [polypeptide binding]; other site 1031711003114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1031711003115 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 1031711003116 putative substrate translocation pore; other site 1031711003117 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1031711003118 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1031711003119 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1031711003120 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 1031711003121 domain interfaces; other site 1031711003122 active site 1031711003123 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1031711003124 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 1031711003125 active site 1031711003126 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1031711003127 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1031711003128 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1031711003129 HemY protein N-terminus; Region: HemY_N; pfam07219 1031711003130 Cytochrome b [Energy production and conversion]; Region: COG3658 1031711003131 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1031711003132 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 1031711003133 D-galactonate transporter; Region: 2A0114; TIGR00893 1031711003134 putative substrate translocation pore; other site 1031711003135 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1031711003136 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1031711003137 putative NAD(P) binding site [chemical binding]; other site 1031711003138 active site 1031711003139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711003140 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1031711003141 NAD(P) binding site [chemical binding]; other site 1031711003142 catalytic residues [active] 1031711003143 catalytic residues [active] 1031711003144 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1031711003145 dimer interface [polypeptide binding]; other site 1031711003146 substrate binding site [chemical binding]; other site 1031711003147 metal binding sites [ion binding]; metal-binding site 1031711003148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1031711003149 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1031711003150 NAD synthetase; Provisional; Region: PRK13981 1031711003151 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1031711003152 multimer interface [polypeptide binding]; other site 1031711003153 active site 1031711003154 catalytic triad [active] 1031711003155 protein interface 1 [polypeptide binding]; other site 1031711003156 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 1031711003157 homodimer interface [polypeptide binding]; other site 1031711003158 NAD binding pocket [chemical binding]; other site 1031711003159 ATP binding pocket [chemical binding]; other site 1031711003160 Mg binding site [ion binding]; other site 1031711003161 active-site loop [active] 1031711003162 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 1031711003163 S-adenosylmethionine binding site [chemical binding]; other site 1031711003164 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1031711003165 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1031711003166 Predicted membrane protein [Function unknown]; Region: COG2860 1031711003167 UPF0126 domain; Region: UPF0126; pfam03458 1031711003168 UPF0126 domain; Region: UPF0126; pfam03458 1031711003169 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1031711003170 Smr domain; Region: Smr; pfam01713 1031711003171 thioredoxin reductase; Provisional; Region: PRK10262 1031711003172 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711003173 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711003174 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1031711003175 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1031711003176 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1031711003177 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1031711003178 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1031711003179 recombination factor protein RarA; Reviewed; Region: PRK13342 1031711003180 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 1031711003181 Walker A motif; other site 1031711003182 ATP binding site [chemical binding]; other site 1031711003183 Walker B motif; other site 1031711003184 arginine finger; other site 1031711003185 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1031711003186 seryl-tRNA synthetase; Provisional; Region: PRK05431 1031711003187 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1031711003188 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 1031711003189 dimer interface [polypeptide binding]; other site 1031711003190 active site 1031711003191 motif 1; other site 1031711003192 motif 2; other site 1031711003193 motif 3; other site 1031711003194 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 1031711003195 DNA-binding interface [nucleotide binding]; DNA binding site 1031711003196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711003197 Integrase core domain; Region: rve; pfam00665 1031711003198 transposase/IS protein; Provisional; Region: PRK09183 1031711003199 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711003200 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 1031711003201 Walker A motif; other site 1031711003202 ATP binding site [chemical binding]; other site 1031711003203 Walker B motif; other site 1031711003204 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711003205 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 1031711003206 active site 1031711003207 phosphorylation site [posttranslational modification] 1031711003208 intermolecular recognition site; other site 1031711003209 dimerization interface [polypeptide binding]; other site 1031711003210 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 1031711003211 DNA binding residues [nucleotide binding] 1031711003212 dimerization interface [polypeptide binding]; other site 1031711003213 PAS fold; Region: PAS_4; pfam08448 1031711003214 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 1031711003215 putative active site [active] 1031711003216 heme pocket [chemical binding]; other site 1031711003217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1031711003218 Histidine kinase; Region: HisKA_3; pfam07730 1031711003219 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 1031711003220 ATP binding site [chemical binding]; other site 1031711003221 Mg2+ binding site [ion binding]; other site 1031711003222 G-X-G motif; other site 1031711003223 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1031711003224 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1031711003225 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711003226 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1031711003227 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711003228 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711003229 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1031711003230 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 1031711003231 Walker A motif; other site 1031711003232 ATP binding site [chemical binding]; other site 1031711003233 Walker B motif; other site 1031711003234 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1031711003235 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1031711003236 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711003237 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711003238 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711003239 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1031711003240 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1031711003241 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711003242 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1031711003243 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711003244 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1031711003245 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1031711003246 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711003247 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1031711003248 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711003249 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 1031711003250 Immunoglobulin domain; Region: Ig; cl11960 1031711003251 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1031711003252 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1031711003253 Cu(I) binding site [ion binding]; other site 1031711003254 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711003255 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 1031711003256 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711003257 catalytic residue [active] 1031711003258 High potential iron-sulfur protein; Region: HIPIP; pfam01355 1031711003259 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1031711003260 active site 1031711003261 catalytic triad [active] 1031711003262 calcium binding site [ion binding]; other site 1031711003263 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1031711003264 VirK protein; Region: VirK; pfam06903 1031711003265 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1031711003266 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1031711003267 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1031711003268 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1031711003269 DNA binding residues [nucleotide binding] 1031711003270 putative dimer interface [polypeptide binding]; other site 1031711003271 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1031711003272 Domain of unknown function DUF21; Region: DUF21; pfam01595 1031711003273 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 1031711003274 Transporter associated domain; Region: CorC_HlyC; smart01091 1031711003275 Uncharacterized conserved protein [Function unknown]; Region: COG3868 1031711003276 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 1031711003277 putative active site [active] 1031711003278 Tetratricopeptide repeat; Region: TPR_15; pfam13429 1031711003279 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1031711003280 GAF domain; Region: GAF_3; pfam13492 1031711003281 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 1031711003282 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_3; cd03813 1031711003283 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1031711003284 Predicted membrane protein [Function unknown]; Region: COG4267 1031711003285 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1031711003286 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1031711003287 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 1031711003288 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711003289 substrate binding pocket [chemical binding]; other site 1031711003290 membrane-bound complex binding site; other site 1031711003291 hinge residues; other site 1031711003292 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1031711003293 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1031711003294 Walker A/P-loop; other site 1031711003295 ATP binding site [chemical binding]; other site 1031711003296 Q-loop/lid; other site 1031711003297 ABC transporter signature motif; other site 1031711003298 Walker B; other site 1031711003299 D-loop; other site 1031711003300 H-loop/switch region; other site 1031711003301 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 1031711003302 dimer interface [polypeptide binding]; other site 1031711003303 conserved gate region; other site 1031711003304 putative PBP binding loops; other site 1031711003305 ABC-ATPase subunit interface; other site 1031711003306 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1031711003307 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 1031711003308 dimer interface [polypeptide binding]; other site 1031711003309 conserved gate region; other site 1031711003310 putative PBP binding loops; other site 1031711003311 ABC-ATPase subunit interface; other site 1031711003312 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711003313 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 1031711003314 substrate binding pocket [chemical binding]; other site 1031711003315 membrane-bound complex binding site; other site 1031711003316 hinge residues; other site 1031711003317 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1031711003318 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711003319 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711003320 Coenzyme A transferase; Region: CoA_trans; cl17247 1031711003321 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1031711003322 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1031711003323 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 1031711003324 dimer interface [polypeptide binding]; other site 1031711003325 active site 1031711003326 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1031711003327 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1031711003328 tetramer interface [polypeptide binding]; other site 1031711003329 active site 1031711003330 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1031711003331 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711003332 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1031711003333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711003334 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 1031711003335 TM-ABC transporter signature motif; other site 1031711003336 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711003337 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 1031711003338 TM-ABC transporter signature motif; other site 1031711003339 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711003340 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711003341 Walker A/P-loop; other site 1031711003342 ATP binding site [chemical binding]; other site 1031711003343 Q-loop/lid; other site 1031711003344 ABC transporter signature motif; other site 1031711003345 Walker B; other site 1031711003346 D-loop; other site 1031711003347 H-loop/switch region; other site 1031711003348 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711003349 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711003350 Walker A/P-loop; other site 1031711003351 ATP binding site [chemical binding]; other site 1031711003352 Q-loop/lid; other site 1031711003353 ABC transporter signature motif; other site 1031711003354 Walker B; other site 1031711003355 D-loop; other site 1031711003356 H-loop/switch region; other site 1031711003357 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711003358 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1031711003359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711003360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711003361 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1031711003362 substrate binding pocket [chemical binding]; other site 1031711003363 dimerization interface [polypeptide binding]; other site 1031711003364 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1031711003365 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711003366 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]; Region: COG2342 1031711003367 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 1031711003368 rRNA binding site [nucleotide binding]; other site 1031711003369 predicted 30S ribosome binding site; other site 1031711003370 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1031711003371 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1031711003372 active site 1031711003373 tetramer interface; other site 1031711003374 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1031711003375 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711003376 active site 1031711003377 HIGH motif; other site 1031711003378 nucleotide binding site [chemical binding]; other site 1031711003379 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1031711003380 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1031711003381 active site 1031711003382 KMSKS motif; other site 1031711003383 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1031711003384 tRNA binding surface [nucleotide binding]; other site 1031711003385 anticodon binding site; other site 1031711003386 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1031711003387 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1031711003388 Part of AAA domain; Region: AAA_19; pfam13245 1031711003389 Family description; Region: UvrD_C_2; pfam13538 1031711003390 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1031711003391 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1031711003392 putative active site [active] 1031711003393 putative substrate binding site [chemical binding]; other site 1031711003394 ATP binding site [chemical binding]; other site 1031711003395 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1031711003396 DNA polymerase I; Provisional; Region: PRK05755 1031711003397 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1031711003398 active site 1031711003399 metal binding site 1 [ion binding]; metal-binding site 1031711003400 putative 5' ssDNA interaction site; other site 1031711003401 metal binding site 3; metal-binding site 1031711003402 metal binding site 2 [ion binding]; metal-binding site 1031711003403 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1031711003404 putative DNA binding site [nucleotide binding]; other site 1031711003405 putative metal binding site [ion binding]; other site 1031711003406 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 1031711003407 ADP-ribose binding site [chemical binding]; other site 1031711003408 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1031711003409 active site 1031711003410 catalytic site [active] 1031711003411 substrate binding site [chemical binding]; other site 1031711003412 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1031711003413 active site 1031711003414 DNA binding site [nucleotide binding] 1031711003415 catalytic site [active] 1031711003416 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1031711003417 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711003418 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1031711003419 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1031711003420 ZIP Zinc transporter; Region: Zip; pfam02535 1031711003421 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1031711003422 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1031711003423 active site residue [active] 1031711003424 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1031711003425 active site residue [active] 1031711003426 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711003427 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1031711003428 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1031711003429 [2Fe-2S] cluster binding site [ion binding]; other site 1031711003430 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1031711003431 alpha subunit interface [polypeptide binding]; other site 1031711003432 active site 1031711003433 substrate binding site [chemical binding]; other site 1031711003434 Fe binding site [ion binding]; other site 1031711003435 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1031711003436 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1031711003437 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1031711003438 substrate binding pocket [chemical binding]; other site 1031711003439 chain length determination region; other site 1031711003440 substrate-Mg2+ binding site; other site 1031711003441 catalytic residues [active] 1031711003442 aspartate-rich region 1; other site 1031711003443 active site lid residues [active] 1031711003444 aspartate-rich region 2; other site 1031711003445 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1031711003446 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 1031711003447 TPP-binding site; other site 1031711003448 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 1031711003449 PYR/PP interface [polypeptide binding]; other site 1031711003450 dimer interface [polypeptide binding]; other site 1031711003451 TPP binding site [chemical binding]; other site 1031711003452 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1031711003453 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1031711003454 UGMP family protein; Validated; Region: PRK09604 1031711003455 HI0933-like protein; Region: HI0933_like; pfam03486 1031711003456 Yqey-like protein; Region: YqeY; pfam09424 1031711003457 DNA primase; Validated; Region: dnaG; PRK05667 1031711003458 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1031711003459 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1031711003460 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 1031711003461 active site 1031711003462 metal binding site [ion binding]; metal-binding site 1031711003463 interdomain interaction site; other site 1031711003464 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1031711003465 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1031711003466 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1031711003467 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1031711003468 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1031711003469 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1031711003470 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711003471 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1031711003472 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 1031711003473 DNA binding residues [nucleotide binding] 1031711003474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1031711003475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711003476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711003477 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1031711003478 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1031711003479 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 1031711003480 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1031711003481 ATP binding site [chemical binding]; other site 1031711003482 Mg++ binding site [ion binding]; other site 1031711003483 motif III; other site 1031711003484 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 1031711003485 nucleotide binding region [chemical binding]; other site 1031711003486 ATP-binding site [chemical binding]; other site 1031711003487 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1031711003488 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1031711003489 active site 1031711003490 HIGH motif; other site 1031711003491 nucleotide binding site [chemical binding]; other site 1031711003492 active site 1031711003493 KMSKS motif; other site 1031711003494 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1031711003495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711003496 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 1031711003497 putative dimerization interface [polypeptide binding]; other site 1031711003498 Pirin-related protein [General function prediction only]; Region: COG1741 1031711003499 Pirin; Region: Pirin; pfam02678 1031711003500 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1031711003501 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711003502 rhodanese superfamily protein; Provisional; Region: PRK05320 1031711003503 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1031711003504 active site residue [active] 1031711003505 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1031711003506 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1031711003507 putative active site [active] 1031711003508 putative PHP Thumb interface [polypeptide binding]; other site 1031711003509 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 1031711003510 generic binding surface II; other site 1031711003511 generic binding surface I; other site 1031711003512 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1031711003513 O-Antigen ligase; Region: Wzy_C; pfam04932 1031711003514 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1031711003515 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 1031711003516 active site 1031711003517 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1031711003518 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1031711003519 putative metal binding site; other site 1031711003520 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1031711003521 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1031711003522 active site 1031711003523 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1031711003524 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1031711003525 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1031711003526 Walker A/P-loop; other site 1031711003527 ATP binding site [chemical binding]; other site 1031711003528 Q-loop/lid; other site 1031711003529 ABC transporter signature motif; other site 1031711003530 Walker B; other site 1031711003531 D-loop; other site 1031711003532 H-loop/switch region; other site 1031711003533 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1031711003534 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 1031711003535 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1031711003536 ribonuclease G; Provisional; Region: PRK11712 1031711003537 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 1031711003538 homodimer interface [polypeptide binding]; other site 1031711003539 oligonucleotide binding site [chemical binding]; other site 1031711003540 Maf-like protein; Region: Maf; pfam02545 1031711003541 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 1031711003542 active site 1031711003543 dimer interface [polypeptide binding]; other site 1031711003544 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1031711003545 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1031711003546 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1031711003547 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1031711003548 active site 1031711003549 (T/H)XGH motif; other site 1031711003550 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1031711003551 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1031711003552 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1031711003553 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1031711003554 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1031711003555 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1031711003556 hypothetical protein; Validated; Region: PRK00110 1031711003557 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1031711003558 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 1031711003559 Walker A motif; other site 1031711003560 ATP binding site [chemical binding]; other site 1031711003561 Zonular occludens toxin (Zot); Region: Zot; cl17485 1031711003562 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711003563 active site 1031711003564 EamA-like transporter family; Region: EamA; pfam00892 1031711003565 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1031711003566 EamA-like transporter family; Region: EamA; pfam00892 1031711003567 short chain dehydrogenase; Provisional; Region: PRK08339 1031711003568 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1031711003569 putative NAD(P) binding site [chemical binding]; other site 1031711003570 putative active site [active] 1031711003571 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1031711003572 active site 1031711003573 dimer interfaces [polypeptide binding]; other site 1031711003574 catalytic residues [active] 1031711003575 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1031711003576 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1031711003577 NADP binding site [chemical binding]; other site 1031711003578 dimer interface [polypeptide binding]; other site 1031711003579 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1031711003580 Isochorismatase family; Region: Isochorismatase; pfam00857 1031711003581 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 1031711003582 catalytic triad [active] 1031711003583 conserved cis-peptide bond; other site 1031711003584 drug efflux system protein MdtG; Provisional; Region: PRK09874 1031711003585 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 1031711003586 putative substrate translocation pore; other site 1031711003587 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1031711003588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711003589 DNA-binding site [nucleotide binding]; DNA binding site 1031711003590 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1031711003591 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 1031711003592 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 1031711003593 FeS/SAM binding site; other site 1031711003594 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1031711003595 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1031711003596 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1031711003597 putative ligand binding site [chemical binding]; other site 1031711003598 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711003599 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 1031711003600 TM-ABC transporter signature motif; other site 1031711003601 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711003602 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 1031711003603 TM-ABC transporter signature motif; other site 1031711003604 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1031711003605 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1031711003606 Walker A/P-loop; other site 1031711003607 ATP binding site [chemical binding]; other site 1031711003608 Q-loop/lid; other site 1031711003609 ABC transporter signature motif; other site 1031711003610 Walker B; other site 1031711003611 D-loop; other site 1031711003612 H-loop/switch region; other site 1031711003613 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1031711003614 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 1031711003615 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1031711003616 putative substrate translocation pore; other site 1031711003617 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1031711003618 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1031711003619 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1031711003620 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1031711003621 putative active site [active] 1031711003622 Predicted membrane protein [Function unknown]; Region: COG3819 1031711003623 Predicted membrane protein [Function unknown]; Region: COG3817 1031711003624 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1031711003625 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1031711003626 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1031711003627 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1031711003628 putative substrate binding pocket [chemical binding]; other site 1031711003629 AC domain interface; other site 1031711003630 catalytic triad [active] 1031711003631 AB domain interface; other site 1031711003632 interchain disulfide; other site 1031711003633 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1031711003634 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711003635 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1031711003636 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711003637 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711003638 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711003639 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1031711003640 Transposase; Region: HTH_Tnp_1; cl17663 1031711003641 putative transposase OrfB; Reviewed; Region: PHA02517 1031711003642 HTH-like domain; Region: HTH_21; pfam13276 1031711003643 Integrase core domain; Region: rve; pfam00665 1031711003644 Integrase core domain; Region: rve_3; pfam13683 1031711003645 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711003646 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711003647 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1031711003648 integrase; Provisional; Region: PRK09692 1031711003649 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1031711003650 active site 1031711003651 Int/Topo IB signature motif; other site 1031711003652 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1031711003653 Helix-turn-helix domain; Region: HTH_39; pfam14090 1031711003654 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1031711003655 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 1031711003656 FeS/SAM binding site; other site 1031711003657 HemN C-terminal domain; Region: HemN_C; pfam06969 1031711003658 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 1031711003659 active site 1031711003660 dimerization interface [polypeptide binding]; other site 1031711003661 ribonuclease PH; Reviewed; Region: rph; PRK00173 1031711003662 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1031711003663 hexamer interface [polypeptide binding]; other site 1031711003664 active site 1031711003665 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 1031711003666 active site 1031711003667 Protein kinase domain; Region: Pkinase; pfam00069 1031711003668 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1031711003669 active site 1031711003670 ATP binding site [chemical binding]; other site 1031711003671 substrate binding site [chemical binding]; other site 1031711003672 activation loop (A-loop); other site 1031711003673 hypothetical protein; Provisional; Region: PRK11820 1031711003674 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1031711003675 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1031711003676 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1031711003677 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 1031711003678 catalytic site [active] 1031711003679 G-X2-G-X-G-K; other site 1031711003680 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1031711003681 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1031711003682 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711003683 Zn2+ binding site [ion binding]; other site 1031711003684 Mg2+ binding site [ion binding]; other site 1031711003685 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1031711003686 synthetase active site [active] 1031711003687 NTP binding site [chemical binding]; other site 1031711003688 metal binding site [ion binding]; metal-binding site 1031711003689 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 1031711003690 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1031711003691 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1031711003692 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1031711003693 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1031711003694 potential frameshift: common BLAST hit: gi|300703582|ref|YP_003745184.1| esterase 1031711003695 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 1031711003696 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1031711003697 BON domain; Region: BON; pfam04972 1031711003698 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711003699 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1031711003700 AMP binding site [chemical binding]; other site 1031711003701 metal binding site [ion binding]; metal-binding site 1031711003702 active site 1031711003703 aminopeptidase N; Provisional; Region: pepN; PRK14015 1031711003704 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1031711003705 active site 1031711003706 Zn binding site [ion binding]; other site 1031711003707 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1031711003708 malic enzyme; Reviewed; Region: PRK12862 1031711003709 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1031711003710 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1031711003711 putative NAD(P) binding site [chemical binding]; other site 1031711003712 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1031711003713 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711003714 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711003715 eyelet of channel; other site 1031711003716 trimer interface [polypeptide binding]; other site 1031711003717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1031711003718 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1031711003719 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1031711003720 active site 1031711003721 catalytic site [active] 1031711003722 tetramer interface [polypeptide binding]; other site 1031711003723 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1031711003724 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 1031711003725 active site 1031711003726 putative substrate binding pocket [chemical binding]; other site 1031711003727 xanthine permease; Region: pbuX; TIGR03173 1031711003728 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1031711003729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711003730 DNA-binding site [nucleotide binding]; DNA binding site 1031711003731 FCD domain; Region: FCD; pfam07729 1031711003732 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1031711003733 active site 1031711003734 homotetramer interface [polypeptide binding]; other site 1031711003735 Predicted membrane protein [Function unknown]; Region: COG3748 1031711003736 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1031711003737 Cytochrome c; Region: Cytochrom_C; pfam00034 1031711003738 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1031711003739 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 1031711003740 putative NAD(P) binding site [chemical binding]; other site 1031711003741 active site 1031711003742 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1031711003743 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1031711003744 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1031711003745 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1031711003746 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1031711003747 potential catalytic triad [active] 1031711003748 conserved cys residue [active] 1031711003749 similar to truncated nad-dependent mannitol dehydrogenase; RSPO_c01328 1031711003750 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1031711003751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711003752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711003753 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1031711003754 putative effector binding pocket; other site 1031711003755 putative dimerization interface [polypeptide binding]; other site 1031711003756 Predicted membrane protein [Function unknown]; Region: COG2119 1031711003757 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1031711003758 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1031711003759 guanine deaminase; Provisional; Region: PRK09228 1031711003760 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1031711003761 active site 1031711003762 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1031711003763 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1031711003764 active site 1031711003765 purine riboside binding site [chemical binding]; other site 1031711003766 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1031711003767 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1031711003768 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1031711003769 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1031711003770 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1031711003771 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711003772 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1031711003773 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 1031711003774 catalytic loop [active] 1031711003775 iron binding site [ion binding]; other site 1031711003776 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1031711003777 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1031711003778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711003779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711003780 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 1031711003781 putative substrate binding pocket [chemical binding]; other site 1031711003782 putative dimerization interface [polypeptide binding]; other site 1031711003783 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 1031711003784 PBP superfamily domain; Region: PBP_like_2; pfam12849 1031711003785 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1031711003786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711003787 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 1031711003788 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1031711003789 FtsX-like permease family; Region: FtsX; pfam02687 1031711003790 FtsX-like permease family; Region: FtsX; pfam02687 1031711003791 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1031711003792 apolar tunnel; other site 1031711003793 heme binding site [chemical binding]; other site 1031711003794 dimerization interface [polypeptide binding]; other site 1031711003795 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1031711003796 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711003797 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1031711003798 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711003799 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711003800 Bacterial transcriptional repressor; Region: TetR; pfam13972 1031711003801 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1031711003802 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 1031711003803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1031711003804 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711003805 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1031711003806 putative active site [active] 1031711003807 putative metal binding site [ion binding]; other site 1031711003808 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711003809 PGAP1-like protein; Region: PGAP1; pfam07819 1031711003810 RDD family; Region: RDD; pfam06271 1031711003811 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1031711003812 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 1031711003813 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1031711003814 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 1031711003815 DNA binding residues [nucleotide binding] 1031711003816 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1031711003817 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1031711003818 PYR/PP interface [polypeptide binding]; other site 1031711003819 dimer interface [polypeptide binding]; other site 1031711003820 TPP binding site [chemical binding]; other site 1031711003821 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1031711003822 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 1031711003823 TPP-binding site [chemical binding]; other site 1031711003824 dimer interface [polypeptide binding]; other site 1031711003825 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1031711003826 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1031711003827 putative valine binding site [chemical binding]; other site 1031711003828 dimer interface [polypeptide binding]; other site 1031711003829 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1031711003830 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1031711003831 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1031711003832 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1031711003833 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1031711003834 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1031711003835 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1031711003836 2-isopropylmalate synthase; Validated; Region: PRK00915 1031711003837 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1031711003838 active site 1031711003839 catalytic residues [active] 1031711003840 metal binding site [ion binding]; metal-binding site 1031711003841 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1031711003842 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711003843 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1031711003844 putative ligand binding site [chemical binding]; other site 1031711003845 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 1031711003846 16S/18S rRNA binding site [nucleotide binding]; other site 1031711003847 S13e-L30e interaction site [polypeptide binding]; other site 1031711003848 25S rRNA binding site [nucleotide binding]; other site 1031711003849 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1031711003850 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1031711003851 RNase E interface [polypeptide binding]; other site 1031711003852 trimer interface [polypeptide binding]; other site 1031711003853 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1031711003854 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1031711003855 RNase E interface [polypeptide binding]; other site 1031711003856 trimer interface [polypeptide binding]; other site 1031711003857 active site 1031711003858 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 1031711003859 putative nucleic acid binding region [nucleotide binding]; other site 1031711003860 G-X-X-G motif; other site 1031711003861 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 1031711003862 RNA binding site [nucleotide binding]; other site 1031711003863 domain interface; other site 1031711003864 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1031711003865 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1031711003866 NAD(P) binding site [chemical binding]; other site 1031711003867 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 1031711003868 triosephosphate isomerase; Provisional; Region: PRK14567 1031711003869 substrate binding site [chemical binding]; other site 1031711003870 dimer interface [polypeptide binding]; other site 1031711003871 catalytic triad [active] 1031711003872 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1031711003873 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1031711003874 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1031711003875 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1031711003876 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1031711003877 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1031711003878 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1031711003879 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1031711003880 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 1031711003881 putative dimer interface [polypeptide binding]; other site 1031711003882 [2Fe-2S] cluster binding site [ion binding]; other site 1031711003883 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1031711003884 SLBB domain; Region: SLBB; pfam10531 1031711003885 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1031711003886 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1031711003887 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 1031711003888 catalytic loop [active] 1031711003889 iron binding site [ion binding]; other site 1031711003890 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1031711003891 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1031711003892 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 1031711003893 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1031711003894 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1031711003895 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1031711003896 4Fe-4S binding domain; Region: Fer4; cl02805 1031711003897 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711003898 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1031711003899 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1031711003900 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1031711003901 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1031711003902 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1031711003903 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1031711003904 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1031711003905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1031711003906 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1031711003907 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1031711003908 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1031711003909 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 1031711003910 dimer interface [polypeptide binding]; other site 1031711003911 ADP-ribose binding site [chemical binding]; other site 1031711003912 active site 1031711003913 nudix motif; other site 1031711003914 metal binding site [ion binding]; metal-binding site 1031711003915 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1031711003916 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1031711003917 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1031711003918 FAD binding site [chemical binding]; other site 1031711003919 substrate binding site [chemical binding]; other site 1031711003920 catalytic base [active] 1031711003921 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1031711003922 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1031711003923 active site 1031711003924 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1031711003925 putative active site [active] 1031711003926 putative catalytic site [active] 1031711003927 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1031711003928 putative active site [active] 1031711003929 putative catalytic site [active] 1031711003930 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711003931 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1031711003932 putative ligand binding site [chemical binding]; other site 1031711003933 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 1031711003934 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711003935 TM-ABC transporter signature motif; other site 1031711003936 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711003937 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 1031711003938 TM-ABC transporter signature motif; other site 1031711003939 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]; Region: COG4674 1031711003940 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711003941 Walker A/P-loop; other site 1031711003942 ATP binding site [chemical binding]; other site 1031711003943 Q-loop/lid; other site 1031711003944 ABC transporter signature motif; other site 1031711003945 Walker B; other site 1031711003946 D-loop; other site 1031711003947 H-loop/switch region; other site 1031711003948 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1031711003949 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711003950 Walker A/P-loop; other site 1031711003951 ATP binding site [chemical binding]; other site 1031711003952 Q-loop/lid; other site 1031711003953 ABC transporter signature motif; other site 1031711003954 Walker B; other site 1031711003955 D-loop; other site 1031711003956 H-loop/switch region; other site 1031711003957 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1031711003958 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1031711003959 alpha-gamma subunit interface [polypeptide binding]; other site 1031711003960 beta-gamma subunit interface [polypeptide binding]; other site 1031711003961 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 1031711003962 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1031711003963 gamma-beta subunit interface [polypeptide binding]; other site 1031711003964 alpha-beta subunit interface [polypeptide binding]; other site 1031711003965 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1031711003966 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1031711003967 subunit interactions [polypeptide binding]; other site 1031711003968 active site 1031711003969 flap region; other site 1031711003970 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1031711003971 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1031711003972 dimer interface [polypeptide binding]; other site 1031711003973 catalytic residues [active] 1031711003974 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1031711003975 UreF; Region: UreF; pfam01730 1031711003976 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1031711003977 G1 box; other site 1031711003978 GTP/Mg2+ binding site [chemical binding]; other site 1031711003979 G2 box; other site 1031711003980 Switch I region; other site 1031711003981 G3 box; other site 1031711003982 Switch II region; other site 1031711003983 G4 box; other site 1031711003984 G5 box; other site 1031711003985 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1031711003986 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 1031711003987 putative di-iron ligands [ion binding]; other site 1031711003988 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1031711003989 Lysine efflux permease [General function prediction only]; Region: COG1279 1031711003990 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1031711003991 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1031711003992 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1031711003993 C-terminal domain interface [polypeptide binding]; other site 1031711003994 GSH binding site (G-site) [chemical binding]; other site 1031711003995 dimer interface [polypeptide binding]; other site 1031711003996 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1031711003997 N-terminal domain interface [polypeptide binding]; other site 1031711003998 putative dimer interface [polypeptide binding]; other site 1031711003999 active site 1031711004000 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711004001 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711004002 active site 1031711004003 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 1031711004004 CoenzymeA binding site [chemical binding]; other site 1031711004005 subunit interaction site [polypeptide binding]; other site 1031711004006 PHB binding site; other site 1031711004007 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1031711004008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711004009 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1031711004010 substrate binding pocket [chemical binding]; other site 1031711004011 dimerization interface [polypeptide binding]; other site 1031711004012 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_9; cd07245 1031711004013 dimer interface [polypeptide binding]; other site 1031711004014 putative metal binding site [ion binding]; other site 1031711004015 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 1031711004016 Phosphotransferase enzyme family; Region: APH; pfam01636 1031711004017 putative active site [active] 1031711004018 putative substrate binding site [chemical binding]; other site 1031711004019 ATP binding site [chemical binding]; other site 1031711004020 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 1031711004021 catalytic core [active] 1031711004022 enoyl-CoA hydratase; Provisional; Region: PRK07511 1031711004023 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 1031711004024 substrate binding site [chemical binding]; other site 1031711004025 oxyanion hole (OAH) forming residues; other site 1031711004026 trimer interface [polypeptide binding]; other site 1031711004027 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1031711004028 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1031711004029 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711004030 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711004031 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711004032 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1031711004033 C-terminal domain interface [polypeptide binding]; other site 1031711004034 GSH binding site (G-site) [chemical binding]; other site 1031711004035 dimer interface [polypeptide binding]; other site 1031711004036 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 1031711004037 putative N-terminal domain interface [polypeptide binding]; other site 1031711004038 putative dimer interface [polypeptide binding]; other site 1031711004039 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711004040 methionine aminotransferase; Validated; Region: PRK09082 1031711004041 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 1031711004042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711004043 homodimer interface [polypeptide binding]; other site 1031711004044 catalytic residue [active] 1031711004045 PIN domain; Region: PIN_3; pfam13470 1031711004046 hypothetical protein; Validated; Region: PRK02101 1031711004047 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1031711004048 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1031711004049 putative active site [active] 1031711004050 Zn binding site [ion binding]; other site 1031711004051 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1031711004052 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_2; cd08498 1031711004053 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1031711004054 aconitate hydratase; Provisional; Region: acnA; PRK12881 1031711004055 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1031711004056 substrate binding site [chemical binding]; other site 1031711004057 ligand binding site [chemical binding]; other site 1031711004058 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1031711004059 substrate binding site [chemical binding]; other site 1031711004060 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1031711004061 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1031711004062 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1031711004063 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1031711004064 dimer interface [polypeptide binding]; other site 1031711004065 active site 1031711004066 citrylCoA binding site [chemical binding]; other site 1031711004067 oxalacetate/citrate binding site [chemical binding]; other site 1031711004068 coenzyme A binding site [chemical binding]; other site 1031711004069 catalytic triad [active] 1031711004070 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1031711004071 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1031711004072 tetramer interface [polypeptide binding]; other site 1031711004073 active site 1031711004074 Mg2+/Mn2+ binding site [ion binding]; other site 1031711004075 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1031711004076 malate dehydrogenase; Provisional; Region: PRK05442 1031711004077 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1031711004078 NAD(P) binding site [chemical binding]; other site 1031711004079 dimer interface [polypeptide binding]; other site 1031711004080 malate binding site [chemical binding]; other site 1031711004081 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1031711004082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711004083 DNA-binding site [nucleotide binding]; DNA binding site 1031711004084 UTRA domain; Region: UTRA; pfam07702 1031711004085 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1031711004086 Iron-sulfur protein interface; other site 1031711004087 proximal quinone binding site [chemical binding]; other site 1031711004088 SdhD (CybS) interface [polypeptide binding]; other site 1031711004089 proximal heme binding site [chemical binding]; other site 1031711004090 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1031711004091 SdhC subunit interface [polypeptide binding]; other site 1031711004092 proximal heme binding site [chemical binding]; other site 1031711004093 cardiolipin binding site; other site 1031711004094 Iron-sulfur protein interface; other site 1031711004095 proximal quinone binding site [chemical binding]; other site 1031711004096 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1031711004097 L-aspartate oxidase; Provisional; Region: PRK06175 1031711004098 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1031711004099 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1031711004100 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1031711004101 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1031711004102 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1031711004103 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1031711004104 dimer interface [polypeptide binding]; other site 1031711004105 active site 1031711004106 citrylCoA binding site [chemical binding]; other site 1031711004107 NADH binding [chemical binding]; other site 1031711004108 cationic pore residues; other site 1031711004109 oxalacetate/citrate binding site [chemical binding]; other site 1031711004110 coenzyme A binding site [chemical binding]; other site 1031711004111 catalytic triad [active] 1031711004112 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1031711004113 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1031711004114 substrate binding site [chemical binding]; other site 1031711004115 ligand binding site [chemical binding]; other site 1031711004116 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1031711004117 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 1031711004118 substrate binding site [chemical binding]; other site 1031711004119 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1031711004120 tartrate dehydrogenase; Region: TTC; TIGR02089 1031711004121 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1031711004122 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1031711004123 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1031711004124 FimV N-terminal domain; Region: FimV_core; TIGR03505 1031711004125 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 1031711004126 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1031711004127 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1031711004128 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1031711004129 dimerization interface 3.5A [polypeptide binding]; other site 1031711004130 active site 1031711004131 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 1031711004132 active site 1031711004133 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1031711004134 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 1031711004135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711004136 catalytic residue [active] 1031711004137 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1031711004138 DNA methylase; Region: N6_N4_Mtase; pfam01555 1031711004139 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1031711004140 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 1031711004141 substrate binding site [chemical binding]; other site 1031711004142 active site 1031711004143 catalytic residues [active] 1031711004144 heterodimer interface [polypeptide binding]; other site 1031711004145 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1031711004146 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1031711004147 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1031711004148 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1031711004149 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1031711004150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 1031711004151 Sporulation related domain; Region: SPOR; pfam05036 1031711004152 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1031711004153 Colicin V production protein; Region: Colicin_V; pfam02674 1031711004154 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1031711004155 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 1031711004156 active site 1031711004157 tetramer interface [polypeptide binding]; other site 1031711004158 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711004159 active site 1031711004160 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1031711004161 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1031711004162 nodulation ABC transporter NodI; Provisional; Region: PRK13537 1031711004163 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1031711004164 Walker A/P-loop; other site 1031711004165 ATP binding site [chemical binding]; other site 1031711004166 Q-loop/lid; other site 1031711004167 ABC transporter signature motif; other site 1031711004168 Walker B; other site 1031711004169 D-loop; other site 1031711004170 H-loop/switch region; other site 1031711004171 phasin family protein; Region: phasin; TIGR01841 1031711004172 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1031711004173 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 1031711004174 putative active site [active] 1031711004175 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1031711004176 Hemin uptake protein hemP; Region: hemP; cl10043 1031711004177 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1031711004178 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1031711004179 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1031711004180 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1031711004181 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1031711004182 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 1031711004183 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1031711004184 Walker A motif; other site 1031711004185 ATP binding site [chemical binding]; other site 1031711004186 Walker B motif; other site 1031711004187 arginine finger; other site 1031711004188 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 1031711004189 Walker A motif; other site 1031711004190 ATP binding site [chemical binding]; other site 1031711004191 Walker B motif; other site 1031711004192 arginine finger; other site 1031711004193 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 1031711004194 dimerization interface [polypeptide binding]; other site 1031711004195 putative DNA binding site [nucleotide binding]; other site 1031711004196 putative Zn2+ binding site [ion binding]; other site 1031711004197 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1031711004198 putative hydrophobic ligand binding site [chemical binding]; other site 1031711004199 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 1031711004200 putative hydrophobic ligand binding site [chemical binding]; other site 1031711004201 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1031711004202 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1031711004203 glutamate racemase; Provisional; Region: PRK00865 1031711004204 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1031711004205 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1031711004206 hypothetical protein; Provisional; Region: PRK05208 1031711004207 EamA-like transporter family; Region: EamA; pfam00892 1031711004208 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711004209 EamA-like transporter family; Region: EamA; pfam00892 1031711004210 acetyl-CoA synthetase; Provisional; Region: PRK00174 1031711004211 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1031711004212 active site 1031711004213 CoA binding site [chemical binding]; other site 1031711004214 acyl-activating enzyme (AAE) consensus motif; other site 1031711004215 AMP binding site [chemical binding]; other site 1031711004216 acetate binding site [chemical binding]; other site 1031711004217 potential frameshift: common BLAST hit: gi|300703748|ref|YP_003745350.1| Na+/solute symporter 1031711004218 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1031711004219 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1031711004220 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1031711004221 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711004222 Coenzyme A binding pocket [chemical binding]; other site 1031711004223 transcriptional regulator EpsA; Region: EpsA; TIGR03020 1031711004224 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 1031711004225 DNA binding residues [nucleotide binding] 1031711004226 dimerization interface [polypeptide binding]; other site 1031711004227 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711004228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711004229 dimer interface [polypeptide binding]; other site 1031711004230 putative CheW interface [polypeptide binding]; other site 1031711004231 Cache domain; Region: Cache_1; pfam02743 1031711004232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711004233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711004234 metal binding site [ion binding]; metal-binding site 1031711004235 active site 1031711004236 I-site; other site 1031711004237 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711004238 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 1031711004239 DNA binding site [nucleotide binding] 1031711004240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711004241 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1031711004242 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 1031711004243 catalytic loop [active] 1031711004244 iron binding site [ion binding]; other site 1031711004245 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1031711004246 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1031711004247 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711004248 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1031711004249 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711004250 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711004251 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1031711004252 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1031711004253 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1031711004254 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1031711004255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1031711004256 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_2; cd08498 1031711004257 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1031711004258 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711004259 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1031711004260 Walker A/P-loop; other site 1031711004261 ATP binding site [chemical binding]; other site 1031711004262 Q-loop/lid; other site 1031711004263 ABC transporter signature motif; other site 1031711004264 Walker B; other site 1031711004265 D-loop; other site 1031711004266 H-loop/switch region; other site 1031711004267 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1031711004268 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1031711004269 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711004270 Walker A/P-loop; other site 1031711004271 ATP binding site [chemical binding]; other site 1031711004272 Q-loop/lid; other site 1031711004273 ABC transporter signature motif; other site 1031711004274 Walker B; other site 1031711004275 D-loop; other site 1031711004276 H-loop/switch region; other site 1031711004277 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1031711004278 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1031711004279 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 1031711004280 dimer interface [polypeptide binding]; other site 1031711004281 conserved gate region; other site 1031711004282 putative PBP binding loops; other site 1031711004283 ABC-ATPase subunit interface; other site 1031711004284 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1031711004285 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 1031711004286 dimer interface [polypeptide binding]; other site 1031711004287 conserved gate region; other site 1031711004288 putative PBP binding loops; other site 1031711004289 ABC-ATPase subunit interface; other site 1031711004290 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1031711004291 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1031711004292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711004293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711004294 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 1031711004295 dimerization interface [polypeptide binding]; other site 1031711004296 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711004297 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711004298 putative ligand binding site [chemical binding]; other site 1031711004299 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1031711004300 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1031711004301 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1031711004302 nudix motif; other site 1031711004303 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1031711004304 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1031711004305 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1031711004306 putative active site [active] 1031711004307 putative substrate binding site [chemical binding]; other site 1031711004308 putative cosubstrate binding site; other site 1031711004309 catalytic site [active] 1031711004310 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1031711004311 active site 1031711004312 catalytic site [active] 1031711004313 substrate binding site [chemical binding]; other site 1031711004314 integrase; Provisional; Region: int; PHA02601 1031711004315 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 1031711004316 active site 1031711004317 DNA binding site [nucleotide binding] 1031711004318 Int/Topo IB signature motif; other site 1031711004319 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1031711004320 HTH-like domain; Region: HTH_21; pfam13276 1031711004321 Integrase core domain; Region: rve; pfam00665 1031711004322 Integrase core domain; Region: rve_3; pfam13683 1031711004323 Transposase; Region: HTH_Tnp_1; pfam01527 1031711004324 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 1031711004325 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1031711004326 active site 1031711004327 catalytic site [active] 1031711004328 substrate binding site [chemical binding]; other site 1031711004329 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1031711004330 COMPASS (Complex proteins associated with Set1p) component shg1; Region: COMPASS-Shg1; pfam05205 1031711004331 Transposase; Region: HTH_Tnp_1; cl17663 1031711004332 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711004333 Integrase core domain; Region: rve; pfam00665 1031711004334 Integrase core domain; Region: rve_3; pfam13683 1031711004335 Transposase; Region: HTH_Tnp_1; cl17663 1031711004336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711004337 putative transposase OrfB; Reviewed; Region: PHA02517 1031711004338 Transposase; Region: HTH_Tnp_1; cl17663 1031711004339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711004340 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711004341 Integrase core domain; Region: rve; pfam00665 1031711004342 Integrase core domain; Region: rve_3; pfam13683 1031711004343 HTH-like domain; Region: HTH_21; pfam13276 1031711004344 Integrase core domain; Region: rve; pfam00665 1031711004345 Integrase core domain; Region: rve_3; pfam13683 1031711004346 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 1031711004347 active site 1031711004348 catalytic residues [active] 1031711004349 DNA binding site [nucleotide binding] 1031711004350 Int/Topo IB signature motif; other site 1031711004351 transposase/IS protein; Provisional; Region: PRK09183 1031711004352 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711004353 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 1031711004354 Walker A motif; other site 1031711004355 ATP binding site [chemical binding]; other site 1031711004356 Walker B motif; other site 1031711004357 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 1031711004358 DNA-binding interface [nucleotide binding]; DNA binding site 1031711004359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711004360 Integrase core domain; Region: rve; pfam00665 1031711004361 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 1031711004362 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1031711004363 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1031711004364 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711004365 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 1031711004366 Ligand Binding Site [chemical binding]; other site 1031711004367 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1031711004368 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1031711004369 putative NAD(P) binding site [chemical binding]; other site 1031711004370 putative substrate binding site [chemical binding]; other site 1031711004371 catalytic Zn binding site [ion binding]; other site 1031711004372 structural Zn binding site [ion binding]; other site 1031711004373 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1031711004374 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1031711004375 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1031711004376 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1031711004377 RNA/DNA hybrid binding site [nucleotide binding]; other site 1031711004378 active site 1031711004379 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1031711004380 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1031711004381 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1031711004382 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 1031711004383 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711004384 catalytic residue [active] 1031711004385 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711004386 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1031711004387 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711004388 acyl-activating enzyme (AAE) consensus motif; other site 1031711004389 AMP binding site [chemical binding]; other site 1031711004390 active site 1031711004391 CoA binding site [chemical binding]; other site 1031711004392 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1031711004393 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1031711004394 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1031711004395 catalytic site [active] 1031711004396 subunit interface [polypeptide binding]; other site 1031711004397 leucine export protein LeuE; Provisional; Region: PRK10958 1031711004398 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1031711004399 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1031711004400 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1031711004401 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1031711004402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1031711004403 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1031711004404 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 1031711004405 IMP binding site; other site 1031711004406 dimer interface [polypeptide binding]; other site 1031711004407 interdomain contacts; other site 1031711004408 partial ornithine binding site; other site 1031711004409 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1031711004410 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1031711004411 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1031711004412 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1031711004413 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1031711004414 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1031711004415 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1031711004416 potential frameshift: common BLAST hit: gi|300703814|ref|YP_003745416.1| cell division protein, ATP-dependent zinc-metallo protease; aaa 1031711004417 FtsH Extracellular; Region: FtsH_ext; pfam06480 1031711004418 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 1031711004419 Walker B motif; other site 1031711004420 arginine finger; other site 1031711004421 Peptidase family M41; Region: Peptidase_M41; pfam01434 1031711004422 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 1031711004423 dihydropteroate synthase; Region: DHPS; TIGR01496 1031711004424 substrate binding pocket [chemical binding]; other site 1031711004425 dimer interface [polypeptide binding]; other site 1031711004426 inhibitor binding site; inhibition site 1031711004427 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1031711004428 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 1031711004429 active site 1031711004430 substrate binding site [chemical binding]; other site 1031711004431 metal binding site [ion binding]; metal-binding site 1031711004432 PBP superfamily domain; Region: PBP_like_2; cl17296 1031711004433 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1031711004434 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 1031711004435 dimer interface [polypeptide binding]; other site 1031711004436 conserved gate region; other site 1031711004437 putative PBP binding loops; other site 1031711004438 ABC-ATPase subunit interface; other site 1031711004439 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1031711004440 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 1031711004441 dimer interface [polypeptide binding]; other site 1031711004442 conserved gate region; other site 1031711004443 putative PBP binding loops; other site 1031711004444 ABC-ATPase subunit interface; other site 1031711004445 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1031711004446 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1031711004447 Walker A/P-loop; other site 1031711004448 ATP binding site [chemical binding]; other site 1031711004449 Q-loop/lid; other site 1031711004450 ABC transporter signature motif; other site 1031711004451 Walker B; other site 1031711004452 D-loop; other site 1031711004453 H-loop/switch region; other site 1031711004454 transcriptional regulator PhoU; Provisional; Region: PRK11115 1031711004455 PhoU domain; Region: PhoU; pfam01895 1031711004456 PhoU domain; Region: PhoU; pfam01895 1031711004457 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1031711004458 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 1031711004459 active site 1031711004460 phosphorylation site [posttranslational modification] 1031711004461 intermolecular recognition site; other site 1031711004462 dimerization interface [polypeptide binding]; other site 1031711004463 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 1031711004464 DNA binding site [nucleotide binding] 1031711004465 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1031711004466 PAS domain; Region: PAS; smart00091 1031711004467 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 1031711004468 dimer interface [polypeptide binding]; other site 1031711004469 phosphorylation site [posttranslational modification] 1031711004470 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 1031711004471 ATP binding site [chemical binding]; other site 1031711004472 Mg2+ binding site [ion binding]; other site 1031711004473 G-X-G motif; other site 1031711004474 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 1031711004475 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1031711004476 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1031711004477 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1031711004478 putative domain interface [polypeptide binding]; other site 1031711004479 putative active site [active] 1031711004480 catalytic site [active] 1031711004481 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1031711004482 putative domain interface [polypeptide binding]; other site 1031711004483 putative active site [active] 1031711004484 catalytic site [active] 1031711004485 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1031711004486 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1031711004487 Putative hemolysin [General function prediction only]; Region: COG3176 1031711004488 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1031711004489 catalytic core [active] 1031711004490 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1031711004491 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711004492 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1031711004493 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 1031711004494 dimerization interface [polypeptide binding]; other site 1031711004495 putative DNA binding site [nucleotide binding]; other site 1031711004496 putative Zn2+ binding site [ion binding]; other site 1031711004497 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1031711004498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711004499 metal binding site [ion binding]; metal-binding site 1031711004500 active site 1031711004501 I-site; other site 1031711004502 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 1031711004503 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 1031711004504 Ligand Binding Site [chemical binding]; other site 1031711004505 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1031711004506 FOG: CBS domain [General function prediction only]; Region: COG0517 1031711004507 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 1031711004508 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 1031711004509 Ligand Binding Site [chemical binding]; other site 1031711004510 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 1031711004511 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 1031711004512 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1031711004513 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 1031711004514 ligand binding site [chemical binding]; other site 1031711004515 flexible hinge region; other site 1031711004516 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 1031711004517 putative switch regulator; other site 1031711004518 non-specific DNA interactions [nucleotide binding]; other site 1031711004519 DNA binding site [nucleotide binding] 1031711004520 sequence specific DNA binding site [nucleotide binding]; other site 1031711004521 putative cAMP binding site [chemical binding]; other site 1031711004522 PAS domain S-box; Region: sensory_box; TIGR00229 1031711004523 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 1031711004524 putative active site [active] 1031711004525 heme pocket [chemical binding]; other site 1031711004526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1031711004527 Histidine kinase; Region: HisKA_3; pfam07730 1031711004528 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 1031711004529 ATP binding site [chemical binding]; other site 1031711004530 Mg2+ binding site [ion binding]; other site 1031711004531 G-X-G motif; other site 1031711004532 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711004533 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 1031711004534 active site 1031711004535 phosphorylation site [posttranslational modification] 1031711004536 intermolecular recognition site; other site 1031711004537 dimerization interface [polypeptide binding]; other site 1031711004538 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 1031711004539 DNA binding residues [nucleotide binding] 1031711004540 dimerization interface [polypeptide binding]; other site 1031711004541 hypothetical protein; Validated; Region: PRK09169 1031711004542 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711004543 metal binding triad [ion binding]; metal-binding site 1031711004544 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1031711004545 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1031711004546 mce related protein; Region: MCE; pfam02470 1031711004547 mce related protein; Region: MCE; pfam02470 1031711004548 mce related protein; Region: MCE; pfam02470 1031711004549 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711004550 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711004551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 1031711004552 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1031711004553 phosphodiesterase YaeI; Provisional; Region: PRK11340 1031711004554 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1031711004555 putative active site [active] 1031711004556 putative metal binding site [ion binding]; other site 1031711004557 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711004558 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711004559 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711004560 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711004561 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711004562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711004563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711004564 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1031711004565 Transposase; Region: HTH_Tnp_1; cl17663 1031711004566 HTH-like domain; Region: HTH_21; pfam13276 1031711004567 Integrase core domain; Region: rve; pfam00665 1031711004568 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 1031711004569 DNA-binding interface [nucleotide binding]; DNA binding site 1031711004570 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711004571 Integrase core domain; Region: rve; pfam00665 1031711004572 transposase/IS protein; Provisional; Region: PRK09183 1031711004573 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711004574 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 1031711004575 Walker A motif; other site 1031711004576 ATP binding site [chemical binding]; other site 1031711004577 Walker B motif; other site 1031711004578 Integrase core domain; Region: rve; pfam00665 1031711004579 Integrase core domain; Region: rve_3; cl15866 1031711004580 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711004581 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711004582 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 1031711004583 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1031711004584 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711004585 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1031711004586 Predicted membrane protein [Function unknown]; Region: COG4323 1031711004587 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711004588 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711004589 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711004590 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 1031711004591 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 1031711004592 homodimer interface [polypeptide binding]; other site 1031711004593 substrate-cofactor binding pocket; other site 1031711004594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711004595 catalytic residue [active] 1031711004596 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_12; cd04625 1031711004597 FOG: CBS domain [General function prediction only]; Region: COG0517 1031711004598 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 1031711004599 putative substrate translocation pore; other site 1031711004600 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1031711004601 putative acyl-acceptor binding pocket; other site 1031711004602 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1031711004603 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1031711004604 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1031711004605 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1031711004606 Tetramer interface [polypeptide binding]; other site 1031711004607 active site 1031711004608 FMN-binding site [chemical binding]; other site 1031711004609 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1031711004610 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1031711004611 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1031711004612 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1031711004613 short chain dehydrogenase; Provisional; Region: PRK06949 1031711004614 classical (c) SDRs; Region: SDR_c; cd05233 1031711004615 NAD(P) binding site [chemical binding]; other site 1031711004616 active site 1031711004617 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 1031711004618 PAS domain; Region: PAS_9; pfam13426 1031711004619 putative active site [active] 1031711004620 heme pocket [chemical binding]; other site 1031711004621 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 1031711004622 DNA binding residues [nucleotide binding] 1031711004623 dimerization interface [polypeptide binding]; other site 1031711004624 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1031711004625 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1031711004626 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1031711004627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711004628 NAD(P) binding site [chemical binding]; other site 1031711004629 active site 1031711004630 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711004631 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711004632 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_2; cd06150 1031711004633 homotrimer interaction site [polypeptide binding]; other site 1031711004634 putative active site [active] 1031711004635 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1031711004636 HD domain; Region: HD_4; pfam13328 1031711004637 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1031711004638 synthetase active site [active] 1031711004639 NTP binding site [chemical binding]; other site 1031711004640 metal binding site [ion binding]; metal-binding site 1031711004641 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 1031711004642 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1031711004643 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1031711004644 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 1031711004645 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1031711004646 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 1031711004647 active site 1031711004648 dimer interface [polypeptide binding]; other site 1031711004649 motif 1; other site 1031711004650 motif 2; other site 1031711004651 motif 3; other site 1031711004652 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 1031711004653 anticodon binding site; other site 1031711004654 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1031711004655 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1031711004656 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1031711004657 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1031711004658 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1031711004659 23S rRNA binding site [nucleotide binding]; other site 1031711004660 L21 binding site [polypeptide binding]; other site 1031711004661 L13 binding site [polypeptide binding]; other site 1031711004662 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1031711004663 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1031711004664 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 1031711004665 dimer interface [polypeptide binding]; other site 1031711004666 motif 1; other site 1031711004667 active site 1031711004668 motif 2; other site 1031711004669 motif 3; other site 1031711004670 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1031711004671 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 1031711004672 putative tRNA-binding site [nucleotide binding]; other site 1031711004673 B3/4 domain; Region: B3_4; pfam03483 1031711004674 tRNA synthetase B5 domain; Region: B5; smart00874 1031711004675 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 1031711004676 dimer interface [polypeptide binding]; other site 1031711004677 motif 1; other site 1031711004678 motif 3; other site 1031711004679 motif 2; other site 1031711004680 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1031711004681 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 1031711004682 IHF dimer interface [polypeptide binding]; other site 1031711004683 IHF - DNA interface [nucleotide binding]; other site 1031711004684 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1031711004685 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1031711004686 DNA binding residues [nucleotide binding] 1031711004687 Cupin; Region: Cupin_6; pfam12852 1031711004688 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711004689 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711004690 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1031711004691 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 1031711004692 active site 1031711004693 catalytic residues [active] 1031711004694 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1031711004695 active site 1031711004696 DNA polymerase IV; Validated; Region: PRK02406 1031711004697 DNA binding site [nucleotide binding] 1031711004698 amino acid transporter; Region: 2A0306; TIGR00909 1031711004699 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1031711004700 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1031711004701 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1031711004702 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1031711004703 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1031711004704 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711004705 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1031711004706 putative catalytic site [active] 1031711004707 putative phosphate binding site [ion binding]; other site 1031711004708 active site 1031711004709 metal binding site A [ion binding]; metal-binding site 1031711004710 DNA binding site [nucleotide binding] 1031711004711 putative AP binding site [nucleotide binding]; other site 1031711004712 putative metal binding site B [ion binding]; other site 1031711004713 cytosine deaminase; Validated; Region: PRK07572 1031711004714 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1031711004715 active site 1031711004716 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1031711004717 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1031711004718 active site 1031711004719 Zn binding site [ion binding]; other site 1031711004720 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1031711004721 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1031711004722 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1031711004723 homodimer interface [polypeptide binding]; other site 1031711004724 NADP binding site [chemical binding]; other site 1031711004725 substrate binding site [chemical binding]; other site 1031711004726 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1031711004727 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 1031711004728 active site 1031711004729 phosphorylation site [posttranslational modification] 1031711004730 intermolecular recognition site; other site 1031711004731 dimerization interface [polypeptide binding]; other site 1031711004732 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 1031711004733 DNA binding residues [nucleotide binding] 1031711004734 dimerization interface [polypeptide binding]; other site 1031711004735 PAS domain S-box; Region: sensory_box; TIGR00229 1031711004736 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 1031711004737 putative active site [active] 1031711004738 heme pocket [chemical binding]; other site 1031711004739 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1031711004740 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 1031711004741 dimer interface [polypeptide binding]; other site 1031711004742 phosphorylation site [posttranslational modification] 1031711004743 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 1031711004744 ATP binding site [chemical binding]; other site 1031711004745 Mg2+ binding site [ion binding]; other site 1031711004746 G-X-G motif; other site 1031711004747 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1031711004748 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1031711004749 dimer interface [polypeptide binding]; other site 1031711004750 TPP-binding site [chemical binding]; other site 1031711004751 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1031711004752 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1031711004753 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711004754 E3 interaction surface; other site 1031711004755 lipoyl attachment site [posttranslational modification]; other site 1031711004756 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711004757 E3 interaction surface; other site 1031711004758 lipoyl attachment site [posttranslational modification]; other site 1031711004759 e3 binding domain; Region: E3_binding; pfam02817 1031711004760 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1031711004761 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1031711004762 active site 1031711004763 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711004764 E3 interaction surface; other site 1031711004765 lipoyl attachment site [posttranslational modification]; other site 1031711004766 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1031711004767 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711004768 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1031711004769 Phasin protein; Region: Phasin_2; pfam09361 1031711004770 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1031711004771 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1031711004772 putative active site [active] 1031711004773 Zn binding site [ion binding]; other site 1031711004774 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711004775 EamA-like transporter family; Region: EamA; pfam00892 1031711004776 EamA-like transporter family; Region: EamA; pfam00892 1031711004777 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 1031711004778 active site 1031711004779 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1031711004780 putative FMN binding site [chemical binding]; other site 1031711004781 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1031711004782 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1031711004783 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711004784 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711004785 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711004786 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1031711004787 Cysteine-rich domain; Region: CCG; pfam02754 1031711004788 Cysteine-rich domain; Region: CCG; pfam02754 1031711004789 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1031711004790 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1031711004791 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 1031711004792 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1031711004793 TM2 domain; Region: TM2; pfam05154 1031711004794 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1031711004795 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1031711004796 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1031711004797 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1031711004798 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1031711004799 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_4; cd04511 1031711004800 nudix motif; other site 1031711004801 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1031711004802 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1031711004803 quinone interaction residues [chemical binding]; other site 1031711004804 active site 1031711004805 catalytic residues [active] 1031711004806 FMN binding site [chemical binding]; other site 1031711004807 substrate binding site [chemical binding]; other site 1031711004808 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1031711004809 potassium uptake protein; Region: kup; TIGR00794 1031711004810 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1031711004811 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1031711004812 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1031711004813 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 1031711004814 RNA binding site [nucleotide binding]; other site 1031711004815 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1031711004816 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 1031711004817 DEAD_2; Region: DEAD_2; pfam06733 1031711004818 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1031711004819 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1031711004820 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 1031711004821 binding surface 1031711004822 TPR motif; other site 1031711004823 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1031711004824 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 1031711004825 RNA binding surface [nucleotide binding]; other site 1031711004826 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1031711004827 active site 1031711004828 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1031711004829 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1031711004830 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1031711004831 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1031711004832 putative acyltransferase; Provisional; Region: PRK05790 1031711004833 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 1031711004834 dimer interface [polypeptide binding]; other site 1031711004835 active site 1031711004836 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1031711004837 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1031711004838 NAD(P) binding site [chemical binding]; other site 1031711004839 homotetramer interface [polypeptide binding]; other site 1031711004840 homodimer interface [polypeptide binding]; other site 1031711004841 active site 1031711004842 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1031711004843 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1031711004844 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1031711004845 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1031711004846 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 1031711004847 FMN binding site [chemical binding]; other site 1031711004848 active site 1031711004849 catalytic residues [active] 1031711004850 substrate binding site [chemical binding]; other site 1031711004851 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1031711004852 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1031711004853 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 1031711004854 FeS/SAM binding site; other site 1031711004855 TRAM domain; Region: TRAM; cl01282 1031711004856 beta-ketothiolase; Provisional; Region: PRK09051 1031711004857 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 1031711004858 dimer interface [polypeptide binding]; other site 1031711004859 active site 1031711004860 cystathionine beta-lyase; Provisional; Region: PRK07050 1031711004861 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 1031711004862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711004863 catalytic residue [active] 1031711004864 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1031711004865 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1031711004866 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1031711004867 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1031711004868 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 1031711004869 motif II; other site 1031711004870 acetylornithine deacetylase; Provisional; Region: PRK07522 1031711004871 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1031711004872 metal binding site [ion binding]; metal-binding site 1031711004873 putative dimer interface [polypeptide binding]; other site 1031711004874 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1031711004875 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1031711004876 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 1031711004877 ATP binding site [chemical binding]; other site 1031711004878 putative Mg++ binding site [ion binding]; other site 1031711004879 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 1031711004880 nucleotide binding region [chemical binding]; other site 1031711004881 ATP-binding site [chemical binding]; other site 1031711004882 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1031711004883 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1031711004884 substrate binding site; other site 1031711004885 dimer interface; other site 1031711004886 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 1031711004887 homotrimer interaction site [polypeptide binding]; other site 1031711004888 zinc binding site [ion binding]; other site 1031711004889 CDP-binding sites; other site 1031711004890 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1031711004891 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1031711004892 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1031711004893 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 1031711004894 dimer interface [polypeptide binding]; other site 1031711004895 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1031711004896 catalytic triad [active] 1031711004897 peroxidatic and resolving cysteines [active] 1031711004898 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1031711004899 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 1031711004900 dimerization interface [polypeptide binding]; other site 1031711004901 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 1031711004902 ATP binding site [chemical binding]; other site 1031711004903 Mg2+ binding site [ion binding]; other site 1031711004904 G-X-G motif; other site 1031711004905 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1031711004906 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 1031711004907 active site 1031711004908 phosphorylation site [posttranslational modification] 1031711004909 intermolecular recognition site; other site 1031711004910 dimerization interface [polypeptide binding]; other site 1031711004911 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 1031711004912 DNA binding site [nucleotide binding] 1031711004913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 1031711004914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1031711004915 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1031711004916 active site lid residues [active] 1031711004917 substrate binding pocket [chemical binding]; other site 1031711004918 catalytic residues [active] 1031711004919 substrate-Mg2+ binding site; other site 1031711004920 aspartate-rich region 1; other site 1031711004921 aspartate-rich region 2; other site 1031711004922 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711004923 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711004924 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711004925 potential protein location (hypothetical protein RSPO_c01739 [Ralstonia solanacearum Po82]) that overlaps RNA (tRNA-L) 1031711004926 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1031711004927 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1031711004928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1031711004929 trigger factor; Provisional; Region: tig; PRK01490 1031711004930 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1031711004931 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1031711004932 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1031711004933 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1031711004934 oligomer interface [polypeptide binding]; other site 1031711004935 active site residues [active] 1031711004936 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1031711004937 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1031711004938 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 1031711004939 Walker A motif; other site 1031711004940 ATP binding site [chemical binding]; other site 1031711004941 Walker B motif; other site 1031711004942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1031711004943 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1031711004944 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1031711004945 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1031711004946 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 1031711004947 Walker A motif; other site 1031711004948 ATP binding site [chemical binding]; other site 1031711004949 Walker B motif; other site 1031711004950 arginine finger; other site 1031711004951 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1031711004952 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 1031711004953 IHF dimer interface [polypeptide binding]; other site 1031711004954 IHF - DNA interface [nucleotide binding]; other site 1031711004955 SurA N-terminal domain; Region: SurA_N_3; cl07813 1031711004956 periplasmic folding chaperone; Provisional; Region: PRK10788 1031711004957 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1031711004958 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1031711004959 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 1031711004960 Catalytic site [active] 1031711004961 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 1031711004962 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1031711004963 active site 1031711004964 catalytic triad [active] 1031711004965 oxyanion hole [active] 1031711004966 switch loop; other site 1031711004967 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1031711004968 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1031711004969 Walker A/P-loop; other site 1031711004970 ATP binding site [chemical binding]; other site 1031711004971 Q-loop/lid; other site 1031711004972 ABC transporter signature motif; other site 1031711004973 Walker B; other site 1031711004974 D-loop; other site 1031711004975 H-loop/switch region; other site 1031711004976 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1031711004977 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 1031711004978 active site 1031711004979 dimer interface [polypeptide binding]; other site 1031711004980 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 1031711004981 dimer interface [polypeptide binding]; other site 1031711004982 active site 1031711004983 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1031711004984 putative carbohydrate kinase; Provisional; Region: PRK10565 1031711004985 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 1031711004986 putative substrate binding site [chemical binding]; other site 1031711004987 putative ATP binding site [chemical binding]; other site 1031711004988 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 1031711004989 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1031711004990 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 1031711004991 dimerization interface [polypeptide binding]; other site 1031711004992 ATP binding site [chemical binding]; other site 1031711004993 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 1031711004994 dimerization interface [polypeptide binding]; other site 1031711004995 ATP binding site [chemical binding]; other site 1031711004996 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1031711004997 putative active site [active] 1031711004998 catalytic triad [active] 1031711004999 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1031711005000 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1031711005001 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1031711005002 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 1031711005003 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 1031711005004 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 1031711005005 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 1031711005006 FeS/SAM binding site; other site 1031711005007 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1031711005008 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711005009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005010 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1031711005011 putative effector binding pocket; other site 1031711005012 putative dimerization interface [polypeptide binding]; other site 1031711005013 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1031711005014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711005015 NAD(P) binding site [chemical binding]; other site 1031711005016 active site 1031711005017 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1031711005018 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 1031711005019 dimer interface [polypeptide binding]; other site 1031711005020 conserved gate region; other site 1031711005021 putative PBP binding loops; other site 1031711005022 ABC-ATPase subunit interface; other site 1031711005023 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 1031711005024 dimer interface [polypeptide binding]; other site 1031711005025 conserved gate region; other site 1031711005026 putative PBP binding loops; other site 1031711005027 ABC-ATPase subunit interface; other site 1031711005028 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1031711005029 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1031711005030 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1031711005031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711005032 Walker A/P-loop; other site 1031711005033 ATP binding site [chemical binding]; other site 1031711005034 Q-loop/lid; other site 1031711005035 ABC transporter signature motif; other site 1031711005036 Walker B; other site 1031711005037 D-loop; other site 1031711005038 H-loop/switch region; other site 1031711005039 TOBE domain; Region: TOBE_2; pfam08402 1031711005040 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1031711005041 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 1031711005042 dimer interface [polypeptide binding]; other site 1031711005043 phosphorylation site [posttranslational modification] 1031711005044 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 1031711005045 ATP binding site [chemical binding]; other site 1031711005046 Mg2+ binding site [ion binding]; other site 1031711005047 G-X-G motif; other site 1031711005048 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1031711005049 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 1031711005050 active site 1031711005051 phosphorylation site [posttranslational modification] 1031711005052 intermolecular recognition site; other site 1031711005053 dimerization interface [polypeptide binding]; other site 1031711005054 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 1031711005055 DNA binding site [nucleotide binding] 1031711005056 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711005057 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711005058 trimer interface [polypeptide binding]; other site 1031711005059 eyelet of channel; other site 1031711005060 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1031711005061 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711005062 Walker A/P-loop; other site 1031711005063 ATP binding site [chemical binding]; other site 1031711005064 Q-loop/lid; other site 1031711005065 ABC transporter signature motif; other site 1031711005066 Walker B; other site 1031711005067 D-loop; other site 1031711005068 H-loop/switch region; other site 1031711005069 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711005070 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 1031711005071 TM-ABC transporter signature motif; other site 1031711005072 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 1031711005073 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1031711005074 zinc binding site [ion binding]; other site 1031711005075 putative ligand binding site [chemical binding]; other site 1031711005076 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1031711005077 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1031711005078 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1031711005079 intracellular septation protein A; Reviewed; Region: PRK00259 1031711005080 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1031711005081 SelR domain; Region: SelR; pfam01641 1031711005082 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1031711005083 hypothetical protein; Validated; Region: PRK00029 1031711005084 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1031711005085 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1031711005086 dimer interface [polypeptide binding]; other site 1031711005087 acyl-activating enzyme (AAE) consensus motif; other site 1031711005088 putative active site [active] 1031711005089 AMP binding site [chemical binding]; other site 1031711005090 putative CoA binding site [chemical binding]; other site 1031711005091 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711005092 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1031711005093 putative ligand binding site [chemical binding]; other site 1031711005094 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 1031711005095 TM-ABC transporter signature motif; other site 1031711005096 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711005097 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 1031711005098 TM-ABC transporter signature motif; other site 1031711005099 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711005100 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711005101 Walker A/P-loop; other site 1031711005102 ATP binding site [chemical binding]; other site 1031711005103 Q-loop/lid; other site 1031711005104 ABC transporter signature motif; other site 1031711005105 Walker B; other site 1031711005106 D-loop; other site 1031711005107 H-loop/switch region; other site 1031711005108 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711005109 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711005110 Walker A/P-loop; other site 1031711005111 ATP binding site [chemical binding]; other site 1031711005112 Q-loop/lid; other site 1031711005113 ABC transporter signature motif; other site 1031711005114 Walker B; other site 1031711005115 D-loop; other site 1031711005116 H-loop/switch region; other site 1031711005117 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1031711005118 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 1031711005119 Interdomain contacts; other site 1031711005120 Cytokine receptor motif; other site 1031711005121 lysine transporter; Provisional; Region: PRK10836 1031711005122 lysine transporter; Provisional; Region: PRK10836 1031711005123 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1031711005124 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 1031711005125 substrate binding site [chemical binding]; other site 1031711005126 oxyanion hole (OAH) forming residues; other site 1031711005127 trimer interface [polypeptide binding]; other site 1031711005128 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1031711005129 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711005130 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711005131 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1031711005132 Isochorismatase family; Region: Isochorismatase; pfam00857 1031711005133 catalytic triad [active] 1031711005134 metal binding site [ion binding]; metal-binding site 1031711005135 conserved cis-peptide bond; other site 1031711005136 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1031711005137 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 1031711005138 dimer interface [polypeptide binding]; other site 1031711005139 active site 1031711005140 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711005141 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1031711005142 FAD binding site [chemical binding]; other site 1031711005143 substrate binding site [chemical binding]; other site 1031711005144 catalytic residues [active] 1031711005145 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1031711005146 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1031711005147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711005148 NAD(P) binding site [chemical binding]; other site 1031711005149 active site 1031711005150 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 1031711005151 CoenzymeA binding site [chemical binding]; other site 1031711005152 subunit interaction site [polypeptide binding]; other site 1031711005153 PHB binding site; other site 1031711005154 Beta-lactamase; Region: Beta-lactamase; pfam00144 1031711005155 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1031711005156 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1031711005157 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1031711005158 NAD(P) binding site [chemical binding]; other site 1031711005159 substrate binding site [chemical binding]; other site 1031711005160 dimer interface [polypeptide binding]; other site 1031711005161 hypothetical protein; Provisional; Region: PRK06208 1031711005162 intersubunit interface [polypeptide binding]; other site 1031711005163 active site 1031711005164 Zn2+ binding site [ion binding]; other site 1031711005165 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711005166 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1031711005167 C-terminal domain interface [polypeptide binding]; other site 1031711005168 GSH binding site (G-site) [chemical binding]; other site 1031711005169 dimer interface [polypeptide binding]; other site 1031711005170 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1031711005171 substrate binding pocket (H-site) [chemical binding]; other site 1031711005172 N-terminal domain interface [polypeptide binding]; other site 1031711005173 hypothetical protein; Provisional; Region: PRK06194 1031711005174 classical (c) SDRs; Region: SDR_c; cd05233 1031711005175 NAD(P) binding site [chemical binding]; other site 1031711005176 active site 1031711005177 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711005178 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1031711005179 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1031711005180 putative active site [active] 1031711005181 metal binding site [ion binding]; metal-binding site 1031711005182 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 1031711005183 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711005184 substrate binding pocket [chemical binding]; other site 1031711005185 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 1031711005186 active site 1031711005187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1031711005188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711005189 Coenzyme A binding pocket [chemical binding]; other site 1031711005190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711005191 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1031711005192 NAD(P) binding site [chemical binding]; other site 1031711005193 active site 1031711005194 Uncharacterized conserved protein [Function unknown]; Region: COG3332 1031711005195 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1031711005196 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1031711005197 YceG-like family; Region: YceG; pfam02618 1031711005198 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1031711005199 dimerization interface [polypeptide binding]; other site 1031711005200 thymidylate kinase; Validated; Region: tmk; PRK00698 1031711005201 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 1031711005202 TMP-binding site; other site 1031711005203 ATP-binding site [chemical binding]; other site 1031711005204 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1031711005205 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1031711005206 PilZ domain; Region: PilZ; cl01260 1031711005207 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1031711005208 active site 1031711005209 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711005210 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711005211 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711005212 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711005213 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1031711005214 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1031711005215 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711005216 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711005217 DNA binding site [nucleotide binding] 1031711005218 domain linker motif; other site 1031711005219 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 1031711005220 putative dimerization interface [polypeptide binding]; other site 1031711005221 putative ligand binding site [chemical binding]; other site 1031711005222 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1031711005223 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1031711005224 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1031711005225 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 1031711005226 dimer interface [polypeptide binding]; other site 1031711005227 conserved gate region; other site 1031711005228 putative PBP binding loops; other site 1031711005229 ABC-ATPase subunit interface; other site 1031711005230 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1031711005231 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 1031711005232 dimer interface [polypeptide binding]; other site 1031711005233 conserved gate region; other site 1031711005234 putative PBP binding loops; other site 1031711005235 ABC-ATPase subunit interface; other site 1031711005236 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1031711005237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711005238 Walker A/P-loop; other site 1031711005239 ATP binding site [chemical binding]; other site 1031711005240 Q-loop/lid; other site 1031711005241 ABC transporter signature motif; other site 1031711005242 Walker B; other site 1031711005243 D-loop; other site 1031711005244 H-loop/switch region; other site 1031711005245 TOBE domain; Region: TOBE_2; pfam08402 1031711005246 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1031711005247 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1031711005248 active site 1031711005249 metal binding site [ion binding]; metal-binding site 1031711005250 hexamer interface [polypeptide binding]; other site 1031711005251 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 1031711005252 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1031711005253 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1031711005254 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711005255 putative C-terminal domain interface [polypeptide binding]; other site 1031711005256 putative GSH binding site (G-site) [chemical binding]; other site 1031711005257 putative dimer interface [polypeptide binding]; other site 1031711005258 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1031711005259 putative N-terminal domain interface [polypeptide binding]; other site 1031711005260 putative dimer interface [polypeptide binding]; other site 1031711005261 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711005262 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1031711005263 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1031711005264 tetramer interface [polypeptide binding]; other site 1031711005265 TPP-binding site [chemical binding]; other site 1031711005266 heterodimer interface [polypeptide binding]; other site 1031711005267 phosphorylation loop region [posttranslational modification] 1031711005268 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1031711005269 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1031711005270 alpha subunit interface [polypeptide binding]; other site 1031711005271 TPP binding site [chemical binding]; other site 1031711005272 heterodimer interface [polypeptide binding]; other site 1031711005273 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1031711005274 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1031711005275 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711005276 E3 interaction surface; other site 1031711005277 lipoyl attachment site [posttranslational modification]; other site 1031711005278 e3 binding domain; Region: E3_binding; pfam02817 1031711005279 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1031711005280 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 1031711005281 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005282 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 1031711005283 Leucine-rich repeats; other site 1031711005284 Substrate binding site [chemical binding]; other site 1031711005285 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005286 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005287 F-box domain; Region: F-box; pfam00646 1031711005288 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 1031711005289 Leucine-rich repeats; other site 1031711005290 Substrate binding site [chemical binding]; other site 1031711005291 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005292 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 1031711005293 Leucine-rich repeats; other site 1031711005294 Substrate binding site [chemical binding]; other site 1031711005295 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005296 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1031711005297 conserved cys residue [active] 1031711005298 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711005299 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1031711005300 Uncharacterized conserved protein [Function unknown]; Region: COG5514 1031711005301 heme-binding site [chemical binding]; other site 1031711005302 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1031711005303 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 1031711005304 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1031711005305 Protein of unknown function (DUF817); Region: DUF817; pfam05675 1031711005306 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1031711005307 AAA domain; Region: AAA_26; pfam13500 1031711005308 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1031711005309 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1031711005310 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711005311 catalytic residue [active] 1031711005312 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1031711005313 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 1031711005314 inhibitor-cofactor binding pocket; inhibition site 1031711005315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711005316 catalytic residue [active] 1031711005317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711005318 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711005319 putative effector binding pocket; other site 1031711005320 dimerization interface [polypeptide binding]; other site 1031711005321 similar to truncated avrptob-related type III effector protein; RSPO_c01857 1031711005322 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1031711005323 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1031711005324 putative NAD(P) binding site [chemical binding]; other site 1031711005325 active site 1031711005326 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1031711005327 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 1031711005328 catalytic loop [active] 1031711005329 iron binding site [ion binding]; other site 1031711005330 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1031711005331 FAD binding pocket [chemical binding]; other site 1031711005332 FAD binding motif [chemical binding]; other site 1031711005333 phosphate binding motif [ion binding]; other site 1031711005334 beta-alpha-beta structure motif; other site 1031711005335 NAD binding pocket [chemical binding]; other site 1031711005336 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1031711005337 inter-subunit interface; other site 1031711005338 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1031711005339 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 1031711005340 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1031711005341 putative alpha subunit interface [polypeptide binding]; other site 1031711005342 putative active site [active] 1031711005343 putative substrate binding site [chemical binding]; other site 1031711005344 Fe binding site [ion binding]; other site 1031711005345 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1031711005346 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 1031711005347 dimer interface [polypeptide binding]; other site 1031711005348 active site 1031711005349 Muconolactone delta-isomerase; Region: MIase; pfam02426 1031711005350 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1031711005351 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1031711005352 octamer interface [polypeptide binding]; other site 1031711005353 active site 1031711005354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005355 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 1031711005356 dimerization interface [polypeptide binding]; other site 1031711005357 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1031711005358 Transglycosylase; Region: Transgly; pfam00912 1031711005359 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1031711005360 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711005361 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 1031711005362 putative DNA binding site [nucleotide binding]; other site 1031711005363 putative Zn2+ binding site [ion binding]; other site 1031711005364 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1031711005365 dimer interface [polypeptide binding]; other site 1031711005366 FMN binding site [chemical binding]; other site 1031711005367 potential frameshift: common BLAST hit: gi|300704168|ref|YP_003745770.1| type III effector protein 1031711005368 potential frameshift: common BLAST hit: gi|300704168|ref|YP_003745770.1| type III effector protein 1031711005369 potential frameshift: common BLAST hit: gi|300704170|ref|YP_003745772.1| type III effector protein 1031711005370 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 1031711005371 putative substrate translocation pore; other site 1031711005372 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 1031711005373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711005374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005375 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711005376 putative effector binding pocket; other site 1031711005377 dimerization interface [polypeptide binding]; other site 1031711005378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1031711005379 CreA protein; Region: CreA; pfam05981 1031711005380 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1031711005381 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1031711005382 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1031711005383 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1031711005384 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711005385 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1031711005386 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1031711005387 MoxR-like ATPases [General function prediction only]; Region: COG0714 1031711005388 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 1031711005389 Walker A motif; other site 1031711005390 ATP binding site [chemical binding]; other site 1031711005391 Walker B motif; other site 1031711005392 arginine finger; other site 1031711005393 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1031711005394 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 1031711005395 metal ion-dependent adhesion site (MIDAS); other site 1031711005396 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1031711005397 putative hydrophobic ligand binding site [chemical binding]; other site 1031711005398 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1031711005399 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1031711005400 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1031711005401 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1031711005402 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1031711005403 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 1031711005404 putative NAD(P) binding site [chemical binding]; other site 1031711005405 active site 1031711005406 putative substrate binding site [chemical binding]; other site 1031711005407 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1031711005408 MgtC family; Region: MgtC; pfam02308 1031711005409 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1031711005410 dimer interface [polypeptide binding]; other site 1031711005411 ligand binding site [chemical binding]; other site 1031711005412 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 1031711005413 dimerization interface [polypeptide binding]; other site 1031711005414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711005415 dimer interface [polypeptide binding]; other site 1031711005416 putative CheW interface [polypeptide binding]; other site 1031711005417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1031711005418 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1031711005419 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1031711005420 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1031711005421 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1031711005422 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1031711005423 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711005424 NAD binding site [chemical binding]; other site 1031711005425 catalytic residues [active] 1031711005426 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1031711005427 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005429 ABC transporter; Region: ABC_tran_2; pfam12848 1031711005430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005431 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1031711005432 dimer interface [polypeptide binding]; other site 1031711005433 catalytic triad [active] 1031711005434 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 1031711005435 nucleoside/Zn binding site; other site 1031711005436 dimer interface [polypeptide binding]; other site 1031711005437 catalytic motif [active] 1031711005438 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1031711005439 active site 1031711005440 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1031711005441 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1031711005442 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 1031711005443 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711005444 non-specific DNA binding site [nucleotide binding]; other site 1031711005445 salt bridge; other site 1031711005446 sequence-specific DNA binding site [nucleotide binding]; other site 1031711005447 HipA N-terminal domain; Region: couple_hipA; TIGR03071 1031711005448 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1031711005449 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1031711005450 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1031711005451 potential frameshift: common BLAST hit: gi|300704196|ref|YP_003745798.1| mfs general substrate transporter 1031711005452 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 1031711005453 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711005454 putative substrate translocation pore; other site 1031711005455 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 1031711005456 transcriptional regulator; Provisional; Region: PRK10632 1031711005457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005458 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711005459 putative effector binding pocket; other site 1031711005460 dimerization interface [polypeptide binding]; other site 1031711005461 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1031711005462 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1031711005463 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1031711005464 catalytic residues [active] 1031711005465 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1031711005466 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1031711005467 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1031711005468 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1031711005469 heterodimer interface [polypeptide binding]; other site 1031711005470 active site 1031711005471 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 1031711005472 heterodimer interface [polypeptide binding]; other site 1031711005473 multimer interface [polypeptide binding]; other site 1031711005474 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1031711005475 active site 1031711005476 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1031711005477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005478 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1031711005479 putative dimerization interface [polypeptide binding]; other site 1031711005480 Predicted transcriptional regulator [Transcription]; Region: COG3905 1031711005481 GMP synthase; Reviewed; Region: guaA; PRK00074 1031711005482 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1031711005483 AMP/PPi binding site [chemical binding]; other site 1031711005484 candidate oxyanion hole; other site 1031711005485 catalytic triad [active] 1031711005486 potential glutamine specificity residues [chemical binding]; other site 1031711005487 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 1031711005488 ATP Binding subdomain [chemical binding]; other site 1031711005489 Ligand Binding sites [chemical binding]; other site 1031711005490 Dimerization subdomain; other site 1031711005491 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1031711005492 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 1031711005493 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1031711005494 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 1031711005495 active site 1031711005496 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711005497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1031711005498 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1031711005499 putative coenzyme Q binding site [chemical binding]; other site 1031711005500 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 1031711005501 SmpB-tmRNA interface; other site 1031711005502 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1031711005503 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1031711005504 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1031711005505 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1031711005506 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1031711005507 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1031711005508 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1031711005509 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1031711005510 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1031711005511 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1031711005512 short chain dehydrogenase; Validated; Region: PRK05855 1031711005513 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711005514 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 1031711005515 classical (c) SDRs; Region: SDR_c; cd05233 1031711005516 NAD(P) binding site [chemical binding]; other site 1031711005517 active site 1031711005518 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 1031711005519 active site 1031711005520 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1031711005521 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1031711005522 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1031711005523 RNA/DNA hybrid binding site [nucleotide binding]; other site 1031711005524 active site 1031711005525 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1031711005526 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1031711005527 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1031711005528 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1031711005529 active site 1031711005530 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 1031711005531 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1031711005532 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1031711005533 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1031711005534 trimer interface [polypeptide binding]; other site 1031711005535 active site 1031711005536 UDP-GlcNAc binding site [chemical binding]; other site 1031711005537 lipid binding site [chemical binding]; lipid-binding site 1031711005538 periplasmic chaperone; Provisional; Region: PRK10780 1031711005539 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1031711005540 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1031711005541 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711005542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711005543 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711005544 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711005545 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711005546 Surface antigen; Region: Bac_surface_Ag; pfam01103 1031711005547 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1031711005548 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 1031711005549 active site 1031711005550 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 1031711005551 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 1031711005552 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1031711005553 putative substrate binding region [chemical binding]; other site 1031711005554 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1031711005555 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1031711005556 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1031711005557 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1031711005558 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1031711005559 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1031711005560 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 1031711005561 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1031711005562 catalytic residue [active] 1031711005563 putative FPP diphosphate binding site; other site 1031711005564 putative FPP binding hydrophobic cleft; other site 1031711005565 dimer interface [polypeptide binding]; other site 1031711005566 putative IPP diphosphate binding site; other site 1031711005567 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1031711005568 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 1031711005569 hinge region; other site 1031711005570 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 1031711005571 putative nucleotide binding site [chemical binding]; other site 1031711005572 uridine monophosphate binding site [chemical binding]; other site 1031711005573 homohexameric interface [polypeptide binding]; other site 1031711005574 elongation factor Ts; Provisional; Region: tsf; PRK09377 1031711005575 UBA/TS-N domain; Region: UBA; pfam00627 1031711005576 Elongation factor TS; Region: EF_TS; pfam00889 1031711005577 Elongation factor TS; Region: EF_TS; pfam00889 1031711005578 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 1031711005579 rRNA interaction site [nucleotide binding]; other site 1031711005580 S8 interaction site; other site 1031711005581 putative laminin-1 binding site; other site 1031711005582 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 1031711005583 active site 1031711005584 PII uridylyl-transferase; Provisional; Region: PRK03059 1031711005585 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1031711005586 metal binding triad; other site 1031711005587 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1031711005588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711005589 Zn2+ binding site [ion binding]; other site 1031711005590 Mg2+ binding site [ion binding]; other site 1031711005591 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1031711005592 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1031711005593 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1031711005594 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 1031711005595 RNA binding surface [nucleotide binding]; other site 1031711005596 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1031711005597 active site 1031711005598 similar to truncated polypeptide deformylase protein; RSPO_c01955 1031711005599 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1031711005600 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 1031711005601 nucleotide binding pocket [chemical binding]; other site 1031711005602 K-X-D-G motif; other site 1031711005603 catalytic site [active] 1031711005604 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1031711005605 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1031711005606 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 1031711005607 Dimer interface [polypeptide binding]; other site 1031711005608 BRCT sequence motif; other site 1031711005609 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 1031711005610 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1031711005611 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1031711005612 Walker A/P-loop; other site 1031711005613 ATP binding site [chemical binding]; other site 1031711005614 Q-loop/lid; other site 1031711005615 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 1031711005616 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1031711005617 Q-loop/lid; other site 1031711005618 ABC transporter signature motif; other site 1031711005619 Walker B; other site 1031711005620 D-loop; other site 1031711005621 H-loop/switch region; other site 1031711005622 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711005623 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711005624 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711005625 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1031711005626 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 1031711005627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711005628 homodimer interface [polypeptide binding]; other site 1031711005629 catalytic residue [active] 1031711005630 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1031711005631 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1031711005632 trimer interface [polypeptide binding]; other site 1031711005633 active site 1031711005634 substrate binding site [chemical binding]; other site 1031711005635 CoA binding site [chemical binding]; other site 1031711005636 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1031711005637 ArsC family; Region: ArsC; pfam03960 1031711005638 putative catalytic residues [active] 1031711005639 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1031711005640 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1031711005641 metal binding site [ion binding]; metal-binding site 1031711005642 dimer interface [polypeptide binding]; other site 1031711005643 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 1031711005644 putative active site [active] 1031711005645 putative metal binding residues [ion binding]; other site 1031711005646 signature motif; other site 1031711005647 putative triphosphate binding site [ion binding]; other site 1031711005648 dimer interface [polypeptide binding]; other site 1031711005649 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1031711005650 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 1031711005651 S-adenosylmethionine binding site [chemical binding]; other site 1031711005652 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1031711005653 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711005654 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711005655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711005656 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1031711005657 SxDxEG motif; other site 1031711005658 active site 1031711005659 metal binding site [ion binding]; metal-binding site 1031711005660 homopentamer interface [polypeptide binding]; other site 1031711005661 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 1031711005662 homodimer interface [polypeptide binding]; other site 1031711005663 homotetramer interface [polypeptide binding]; other site 1031711005664 active site pocket [active] 1031711005665 cleavage site 1031711005666 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1031711005667 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1031711005668 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 1031711005669 dimer interface [polypeptide binding]; other site 1031711005670 conserved gate region; other site 1031711005671 putative PBP binding loops; other site 1031711005672 ABC-ATPase subunit interface; other site 1031711005673 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1031711005674 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 1031711005675 dimer interface [polypeptide binding]; other site 1031711005676 conserved gate region; other site 1031711005677 putative PBP binding loops; other site 1031711005678 ABC-ATPase subunit interface; other site 1031711005679 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1031711005680 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1031711005681 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1031711005682 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711005683 Walker A/P-loop; other site 1031711005684 ATP binding site [chemical binding]; other site 1031711005685 Q-loop/lid; other site 1031711005686 ABC transporter signature motif; other site 1031711005687 Walker B; other site 1031711005688 D-loop; other site 1031711005689 H-loop/switch region; other site 1031711005690 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1031711005691 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711005692 Walker A/P-loop; other site 1031711005693 ATP binding site [chemical binding]; other site 1031711005694 Q-loop/lid; other site 1031711005695 ABC transporter signature motif; other site 1031711005696 Walker B; other site 1031711005697 D-loop; other site 1031711005698 H-loop/switch region; other site 1031711005699 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1031711005700 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1031711005701 catalytic nucleophile [active] 1031711005702 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1031711005703 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1031711005704 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1031711005705 putative active site [active] 1031711005706 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1031711005707 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005708 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005709 ABC transporter; Region: ABC_tran_2; pfam12848 1031711005710 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711005711 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1031711005712 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711005713 disulfide bond formation protein B; Provisional; Region: PRK02110 1031711005714 DNA repair protein RadA; Provisional; Region: PRK11823 1031711005715 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 1031711005716 Walker A motif/ATP binding site; other site 1031711005717 ATP binding site [chemical binding]; other site 1031711005718 Walker B motif; other site 1031711005719 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1031711005720 alanine racemase; Reviewed; Region: dadX; PRK03646 1031711005721 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1031711005722 active site 1031711005723 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711005724 substrate binding site [chemical binding]; other site 1031711005725 catalytic residues [active] 1031711005726 dimer interface [polypeptide binding]; other site 1031711005727 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1031711005728 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1031711005729 Fe-S cluster binding site [ion binding]; other site 1031711005730 active site 1031711005731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711005732 Coenzyme A binding pocket [chemical binding]; other site 1031711005733 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1031711005734 Glycoprotease family; Region: Peptidase_M22; pfam00814 1031711005735 Acyl-CoA-binding protein [Lipid metabolism]; Region: ACB; COG4281 1031711005736 acyl-CoA binding pocket [chemical binding]; other site 1031711005737 CoA binding site [chemical binding]; other site 1031711005738 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1031711005739 putative hydrophobic ligand binding site [chemical binding]; other site 1031711005740 malate synthase A; Region: malate_syn_A; TIGR01344 1031711005741 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1031711005742 active site 1031711005743 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1031711005744 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 1031711005745 motif II; other site 1031711005746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711005747 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711005748 putative effector binding pocket; other site 1031711005749 dimerization interface [polypeptide binding]; other site 1031711005750 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 1031711005751 Ligand Binding Site [chemical binding]; other site 1031711005752 isocitrate lyase; Provisional; Region: PRK15063 1031711005753 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1031711005754 tetramer interface [polypeptide binding]; other site 1031711005755 active site 1031711005756 Mg2+/Mn2+ binding site [ion binding]; other site 1031711005757 F-box domain; Region: F-box; pfam00646 1031711005758 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 1031711005759 Leucine-rich repeats; other site 1031711005760 Substrate binding site [chemical binding]; other site 1031711005761 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005762 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 1031711005763 Leucine-rich repeats; other site 1031711005764 Substrate binding site [chemical binding]; other site 1031711005765 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005766 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005767 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005768 Leucine rich repeat; Region: LRR_8; pfam13855 1031711005769 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 1031711005770 putative active site pocket [active] 1031711005771 dimerization interface [polypeptide binding]; other site 1031711005772 putative catalytic residue [active] 1031711005773 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1031711005774 thiamine pyrophosphate protein; Validated; Region: PRK08199 1031711005775 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1031711005776 PYR/PP interface [polypeptide binding]; other site 1031711005777 dimer interface [polypeptide binding]; other site 1031711005778 TPP binding site [chemical binding]; other site 1031711005779 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1031711005780 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; cd00568 1031711005781 TPP-binding site [chemical binding]; other site 1031711005782 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1031711005783 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 1031711005784 active site 1031711005785 phosphorylation site [posttranslational modification] 1031711005786 intermolecular recognition site; other site 1031711005787 dimerization interface [polypeptide binding]; other site 1031711005788 LytTr DNA-binding domain; Region: LytTR; smart00850 1031711005789 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1031711005790 Histidine kinase; Region: His_kinase; pfam06580 1031711005791 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 1031711005792 ATP binding site [chemical binding]; other site 1031711005793 Mg2+ binding site [ion binding]; other site 1031711005794 G-X-G motif; other site 1031711005795 2TM domain; Region: 2TM; pfam13239 1031711005796 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 1031711005797 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711005798 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1031711005799 substrate binding site [chemical binding]; other site 1031711005800 dimerization interface [polypeptide binding]; other site 1031711005801 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1031711005802 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1031711005803 Walker A/P-loop; other site 1031711005804 ATP binding site [chemical binding]; other site 1031711005805 Q-loop/lid; other site 1031711005806 ABC transporter signature motif; other site 1031711005807 Walker B; other site 1031711005808 D-loop; other site 1031711005809 H-loop/switch region; other site 1031711005810 TOBE-like domain; Region: TOBE_3; pfam12857 1031711005811 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 1031711005812 dimer interface [polypeptide binding]; other site 1031711005813 conserved gate region; other site 1031711005814 putative PBP binding loops; other site 1031711005815 ABC-ATPase subunit interface; other site 1031711005816 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1031711005817 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 1031711005818 dimer interface [polypeptide binding]; other site 1031711005819 conserved gate region; other site 1031711005820 putative PBP binding loops; other site 1031711005821 ABC-ATPase subunit interface; other site 1031711005822 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1031711005823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711005824 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 1031711005825 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1031711005826 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1031711005827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711005828 Walker A/P-loop; other site 1031711005829 ATP binding site [chemical binding]; other site 1031711005830 Q-loop/lid; other site 1031711005831 ABC transporter signature motif; other site 1031711005832 Walker B; other site 1031711005833 D-loop; other site 1031711005834 H-loop/switch region; other site 1031711005835 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1031711005836 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 1031711005837 putative PBP binding loops; other site 1031711005838 ABC-ATPase subunit interface; other site 1031711005839 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1031711005840 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1031711005841 active site 1031711005842 dimer interface [polypeptide binding]; other site 1031711005843 non-prolyl cis peptide bond; other site 1031711005844 insertion regions; other site 1031711005845 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1031711005846 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 1031711005847 dimerization interface [polypeptide binding]; other site 1031711005848 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 1031711005849 substrate binding pocket [chemical binding]; other site 1031711005850 membrane-bound complex binding site; other site 1031711005851 hinge residues; other site 1031711005852 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1031711005853 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 1031711005854 substrate binding pocket [chemical binding]; other site 1031711005855 membrane-bound complex binding site; other site 1031711005856 hinge residues; other site 1031711005857 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711005858 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1031711005859 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1031711005860 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1031711005861 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1031711005862 Clp amino terminal domain; Region: Clp_N; pfam02861 1031711005863 Clp amino terminal domain; Region: Clp_N; pfam02861 1031711005864 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 1031711005865 Walker A motif; other site 1031711005866 ATP binding site [chemical binding]; other site 1031711005867 Walker B motif; other site 1031711005868 arginine finger; other site 1031711005869 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 1031711005870 Walker A motif; other site 1031711005871 ATP binding site [chemical binding]; other site 1031711005872 Walker B motif; other site 1031711005873 arginine finger; other site 1031711005874 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1031711005875 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 1031711005876 chromosome condensation membrane protein; Provisional; Region: PRK14196 1031711005877 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1031711005878 MoaE homodimer interface [polypeptide binding]; other site 1031711005879 MoaD interaction [polypeptide binding]; other site 1031711005880 active site residues [active] 1031711005881 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1031711005882 MoaE interaction surface [polypeptide binding]; other site 1031711005883 MoeB interaction surface [polypeptide binding]; other site 1031711005884 thiocarboxylated glycine; other site 1031711005885 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1031711005886 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 1031711005887 dimer interface [polypeptide binding]; other site 1031711005888 putative functional site; other site 1031711005889 putative MPT binding site; other site 1031711005890 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1031711005891 putative uracil binding site [chemical binding]; other site 1031711005892 putative active site [active] 1031711005893 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1031711005894 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 1031711005895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711005896 catalytic residue [active] 1031711005897 homoserine dehydrogenase; Provisional; Region: PRK06349 1031711005898 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1031711005899 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1031711005900 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 1031711005901 aminotransferase AlaT; Validated; Region: PRK09265 1031711005902 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 1031711005903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711005904 homodimer interface [polypeptide binding]; other site 1031711005905 catalytic residue [active] 1031711005906 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1031711005907 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1031711005908 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1031711005909 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1031711005910 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1031711005911 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 1031711005912 inhibitor-cofactor binding pocket; inhibition site 1031711005913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711005914 catalytic residue [active] 1031711005915 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1031711005916 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1031711005917 Ligand binding site; other site 1031711005918 Putative Catalytic site; other site 1031711005919 DXD motif; other site 1031711005920 putative formyltransferase; Provisional; Region: PRK06988 1031711005921 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1031711005922 active site 1031711005923 substrate binding site [chemical binding]; other site 1031711005924 cosubstrate binding site; other site 1031711005925 catalytic site [active] 1031711005926 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1031711005927 active site 1031711005928 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1031711005929 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1031711005930 NAD binding site [chemical binding]; other site 1031711005931 substrate binding site [chemical binding]; other site 1031711005932 active site 1031711005933 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 1031711005934 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1031711005935 putative active site [active] 1031711005936 putative catalytic site [active] 1031711005937 putative Zn binding site [ion binding]; other site 1031711005938 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1031711005939 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1031711005940 catalytic triad [active] 1031711005941 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1031711005942 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1031711005943 putative active site [active] 1031711005944 PhoH-like protein; Region: PhoH; pfam02562 1031711005945 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1031711005946 NlpC/P60 family; Region: NLPC_P60; pfam00877 1031711005947 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1031711005948 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1031711005949 replicative DNA helicase; Provisional; Region: PRK07004 1031711005950 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1031711005951 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 1031711005952 Walker A motif; other site 1031711005953 ATP binding site [chemical binding]; other site 1031711005954 Walker B motif; other site 1031711005955 DNA binding loops [nucleotide binding] 1031711005956 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1031711005957 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1031711005958 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1031711005959 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1031711005960 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1031711005961 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1031711005962 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1031711005963 active site 1031711005964 homotetramer interface [polypeptide binding]; other site 1031711005965 homodimer interface [polypeptide binding]; other site 1031711005966 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1031711005967 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1031711005968 FAD binding pocket [chemical binding]; other site 1031711005969 FAD binding motif [chemical binding]; other site 1031711005970 phosphate binding motif [ion binding]; other site 1031711005971 beta-alpha-beta structure motif; other site 1031711005972 NAD binding pocket [chemical binding]; other site 1031711005973 Streptomyces sporulation and cell division protein, SsgA; Region: SsgA; pfam04686 1031711005974 LexA repressor; Validated; Region: PRK00215 1031711005975 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1031711005976 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 1031711005977 Catalytic site [active] 1031711005978 hypothetical protein; Provisional; Region: PRK06156 1031711005979 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1031711005980 active site 1031711005981 metal binding site [ion binding]; metal-binding site 1031711005982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 1031711005983 potential protein location (conserved hypothetical protein [Ralstonia solanacearum Po82]) that overlaps RNA (tRNA-H) 1031711005984 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1031711005985 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 1031711005986 FMN binding site [chemical binding]; other site 1031711005987 active site 1031711005988 catalytic residues [active] 1031711005989 substrate binding site [chemical binding]; other site 1031711005990 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1031711005991 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 1031711005992 substrate binding site [chemical binding]; other site 1031711005993 oxyanion hole (OAH) forming residues; other site 1031711005994 trimer interface [polypeptide binding]; other site 1031711005995 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1031711005996 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1031711005997 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1031711005998 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1031711005999 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1031711006000 G1 box; other site 1031711006001 putative GEF interaction site [polypeptide binding]; other site 1031711006002 GTP/Mg2+ binding site [chemical binding]; other site 1031711006003 Switch I region; other site 1031711006004 G2 box; other site 1031711006005 G3 box; other site 1031711006006 Switch II region; other site 1031711006007 G4 box; other site 1031711006008 G5 box; other site 1031711006009 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 1031711006010 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 1031711006011 MarR family; Region: MarR_2; cl17246 1031711006012 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711006013 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711006014 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1031711006015 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711006016 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1031711006017 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711006018 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1031711006019 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 1031711006020 putative substrate translocation pore; other site 1031711006021 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 1031711006022 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 1031711006023 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1031711006024 RNA binding site [nucleotide binding]; other site 1031711006025 active site 1031711006026 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1031711006027 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1031711006028 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1031711006029 translation initiation factor IF-2; Region: IF-2; TIGR00487 1031711006030 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1031711006031 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1031711006032 G1 box; other site 1031711006033 putative GEF interaction site [polypeptide binding]; other site 1031711006034 GTP/Mg2+ binding site [chemical binding]; other site 1031711006035 Switch I region; other site 1031711006036 G2 box; other site 1031711006037 G3 box; other site 1031711006038 Switch II region; other site 1031711006039 G4 box; other site 1031711006040 G5 box; other site 1031711006041 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 1031711006042 Translation-initiation factor 2; Region: IF-2; pfam11987 1031711006043 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 1031711006044 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1031711006045 NusA N-terminal domain; Region: NusA_N; pfam08529 1031711006046 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 1031711006047 RNA binding site [nucleotide binding]; other site 1031711006048 homodimer interface [polypeptide binding]; other site 1031711006049 NusA-like KH domain; Region: KH_5; pfam13184 1031711006050 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 1031711006051 G-X-X-G motif; other site 1031711006052 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1031711006053 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1031711006054 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1031711006055 Sm and related proteins; Region: Sm_like; cl00259 1031711006056 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1031711006057 putative oligomer interface [polypeptide binding]; other site 1031711006058 putative RNA binding site [nucleotide binding]; other site 1031711006059 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1031711006060 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 1031711006061 RNA binding surface [nucleotide binding]; other site 1031711006062 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1031711006063 probable active site [active] 1031711006064 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1031711006065 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1031711006066 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1031711006067 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 1031711006068 ligand binding site [chemical binding]; other site 1031711006069 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 1031711006070 putative switch regulator; other site 1031711006071 non-specific DNA interactions [nucleotide binding]; other site 1031711006072 DNA binding site [nucleotide binding] 1031711006073 sequence specific DNA binding site [nucleotide binding]; other site 1031711006074 putative cAMP binding site [chemical binding]; other site 1031711006075 FixH; Region: FixH; pfam05751 1031711006076 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1031711006077 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 1031711006078 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1031711006079 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1031711006080 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1031711006081 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1031711006082 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 1031711006083 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1031711006084 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1031711006085 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1031711006086 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1031711006087 Low-spin heme binding site [chemical binding]; other site 1031711006088 Putative water exit pathway; other site 1031711006089 Binuclear center (active site) [active] 1031711006090 Putative proton exit pathway; other site 1031711006091 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1031711006092 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1031711006093 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1031711006094 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 1031711006095 metal-binding site [ion binding] 1031711006096 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1031711006097 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1031711006098 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 1031711006099 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 1031711006100 Predicted ATPase [General function prediction only]; Region: COG1485 1031711006101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711006102 Walker B; other site 1031711006103 D-loop; other site 1031711006104 H-loop/switch region; other site 1031711006105 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1031711006106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711006107 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1031711006108 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1031711006109 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711006110 E3 interaction surface; other site 1031711006111 lipoyl attachment site [posttranslational modification]; other site 1031711006112 e3 binding domain; Region: E3_binding; pfam02817 1031711006113 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1031711006114 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1031711006115 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1031711006116 TPP-binding site [chemical binding]; other site 1031711006117 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1031711006118 dimer interface [polypeptide binding]; other site 1031711006119 PYR/PP interface [polypeptide binding]; other site 1031711006120 TPP binding site [chemical binding]; other site 1031711006121 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1031711006122 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1031711006123 putative active site [active] 1031711006124 catalytic site [active] 1031711006125 putative metal binding site [ion binding]; other site 1031711006126 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1031711006127 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1031711006128 Walker A/P-loop; other site 1031711006129 ATP binding site [chemical binding]; other site 1031711006130 Q-loop/lid; other site 1031711006131 ABC transporter signature motif; other site 1031711006132 Walker B; other site 1031711006133 D-loop; other site 1031711006134 H-loop/switch region; other site 1031711006135 TOBE domain; Region: TOBE_2; pfam08402 1031711006136 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1031711006137 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 1031711006138 dimer interface [polypeptide binding]; other site 1031711006139 conserved gate region; other site 1031711006140 putative PBP binding loops; other site 1031711006141 ABC-ATPase subunit interface; other site 1031711006142 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1031711006143 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 1031711006144 dimer interface [polypeptide binding]; other site 1031711006145 conserved gate region; other site 1031711006146 putative PBP binding loops; other site 1031711006147 ABC-ATPase subunit interface; other site 1031711006148 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1031711006149 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1031711006150 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1031711006151 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 1031711006152 active site 1031711006153 motif I; other site 1031711006154 motif II; other site 1031711006155 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1031711006156 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 1031711006157 active site 1031711006158 phosphorylation site [posttranslational modification] 1031711006159 intermolecular recognition site; other site 1031711006160 dimerization interface [polypeptide binding]; other site 1031711006161 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 1031711006162 Walker A motif; other site 1031711006163 ATP binding site [chemical binding]; other site 1031711006164 Walker B motif; other site 1031711006165 arginine finger; other site 1031711006166 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711006167 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1031711006168 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 1031711006169 putative active site [active] 1031711006170 heme pocket [chemical binding]; other site 1031711006171 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 1031711006172 dimer interface [polypeptide binding]; other site 1031711006173 phosphorylation site [posttranslational modification] 1031711006174 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 1031711006175 ATP binding site [chemical binding]; other site 1031711006176 Mg2+ binding site [ion binding]; other site 1031711006177 G-X-G motif; other site 1031711006178 glutamine synthetase; Provisional; Region: glnA; PRK09469 1031711006179 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1031711006180 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1031711006181 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 1031711006182 active site residue [active] 1031711006183 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1031711006184 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 1031711006185 putative MPT binding site; other site 1031711006186 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1031711006187 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1031711006188 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1031711006189 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1031711006190 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1031711006191 NodB motif; other site 1031711006192 active site 1031711006193 catalytic site [active] 1031711006194 metal binding site [ion binding]; metal-binding site 1031711006195 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1031711006196 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1031711006197 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 1031711006198 ATP binding site [chemical binding]; other site 1031711006199 putative Mg++ binding site [ion binding]; other site 1031711006200 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 1031711006201 nucleotide binding region [chemical binding]; other site 1031711006202 ATP-binding site [chemical binding]; other site 1031711006203 Helicase associated domain (HA2); Region: HA2; pfam04408 1031711006204 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1031711006205 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1031711006206 N-acetylglutamate synthase; Validated; Region: PRK05279 1031711006207 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1031711006208 putative feedback inhibition sensing region; other site 1031711006209 putative nucleotide binding site [chemical binding]; other site 1031711006210 putative substrate binding site [chemical binding]; other site 1031711006211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711006212 Coenzyme A binding pocket [chemical binding]; other site 1031711006213 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1031711006214 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711006215 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1031711006216 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1031711006217 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 1031711006218 KduI/IolB family; Region: KduI; pfam04962 1031711006219 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1031711006220 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1031711006221 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1031711006222 PYR/PP interface [polypeptide binding]; other site 1031711006223 dimer interface [polypeptide binding]; other site 1031711006224 TPP binding site [chemical binding]; other site 1031711006225 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1031711006226 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 1031711006227 TPP-binding site [chemical binding]; other site 1031711006228 similar to truncated transferase kinase protein; RSPO_c02119 1031711006229 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711006230 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1031711006231 TM-ABC transporter signature motif; other site 1031711006232 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1031711006233 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1031711006234 Walker A/P-loop; other site 1031711006235 ATP binding site [chemical binding]; other site 1031711006236 Q-loop/lid; other site 1031711006237 ABC transporter signature motif; other site 1031711006238 Walker B; other site 1031711006239 D-loop; other site 1031711006240 H-loop/switch region; other site 1031711006241 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1031711006242 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1031711006243 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1031711006244 putative ligand binding site [chemical binding]; other site 1031711006245 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1031711006246 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711006247 DNA binding site [nucleotide binding] 1031711006248 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1031711006249 putative ligand binding site [chemical binding]; other site 1031711006250 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1031711006251 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 1031711006252 putative di-iron ligands [ion binding]; other site 1031711006253 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1031711006254 [2Fe-2S] cluster binding site [ion binding]; other site 1031711006255 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1031711006256 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1031711006257 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 1031711006258 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1031711006259 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711006260 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1031711006261 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711006262 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1031711006263 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1031711006264 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1031711006265 putative active site [active] 1031711006266 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1031711006267 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711006268 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1031711006269 oxidative damage protection protein; Provisional; Region: PRK05408 1031711006270 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 1031711006271 dimerization interface [polypeptide binding]; other site 1031711006272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711006273 dimer interface [polypeptide binding]; other site 1031711006274 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1031711006275 putative CheW interface [polypeptide binding]; other site 1031711006276 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1031711006277 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1031711006278 Na binding site [ion binding]; other site 1031711006279 putative substrate binding site [chemical binding]; other site 1031711006280 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1031711006281 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1031711006282 active site 1031711006283 dimer interface [polypeptide binding]; other site 1031711006284 transaldolase-like protein; Provisional; Region: PTZ00411 1031711006285 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1031711006286 active site 1031711006287 dimer interface [polypeptide binding]; other site 1031711006288 catalytic residue [active] 1031711006289 NAD-dependent deacetylase; Provisional; Region: PRK00481 1031711006290 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1031711006291 NAD+ binding site [chemical binding]; other site 1031711006292 substrate binding site [chemical binding]; other site 1031711006293 Zn binding site [ion binding]; other site 1031711006294 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1031711006295 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1031711006296 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1031711006297 ribonuclease R; Region: RNase_R; TIGR02063 1031711006298 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1031711006299 RNB domain; Region: RNB; pfam00773 1031711006300 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1031711006301 RNA binding site [nucleotide binding]; other site 1031711006302 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1031711006303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711006304 active site 1031711006305 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1031711006306 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 1031711006307 GDP-binding site [chemical binding]; other site 1031711006308 ACT binding site; other site 1031711006309 IMP binding site; other site 1031711006310 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1031711006311 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 1031711006312 dimer interface [polypeptide binding]; other site 1031711006313 motif 1; other site 1031711006314 active site 1031711006315 motif 2; other site 1031711006316 motif 3; other site 1031711006317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1031711006318 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1031711006319 HflC protein; Region: hflC; TIGR01932 1031711006320 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1031711006321 HflK protein; Region: hflK; TIGR01933 1031711006322 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1031711006323 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1031711006324 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1031711006325 HflX GTPase family; Region: HflX; cd01878 1031711006326 G1 box; other site 1031711006327 GTP/Mg2+ binding site [chemical binding]; other site 1031711006328 Switch I region; other site 1031711006329 G2 box; other site 1031711006330 G3 box; other site 1031711006331 Switch II region; other site 1031711006332 G4 box; other site 1031711006333 bacterial Hfq-like; Region: Hfq; cd01716 1031711006334 hexamer interface [polypeptide binding]; other site 1031711006335 Sm1 motif; other site 1031711006336 RNA binding site [nucleotide binding]; other site 1031711006337 Sm2 motif; other site 1031711006338 GTP-binding protein Der; Reviewed; Region: PRK00093 1031711006339 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1031711006340 G1 box; other site 1031711006341 GTP/Mg2+ binding site [chemical binding]; other site 1031711006342 Switch I region; other site 1031711006343 G2 box; other site 1031711006344 Switch II region; other site 1031711006345 G3 box; other site 1031711006346 G4 box; other site 1031711006347 G5 box; other site 1031711006348 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1031711006349 G1 box; other site 1031711006350 GTP/Mg2+ binding site [chemical binding]; other site 1031711006351 Switch I region; other site 1031711006352 G2 box; other site 1031711006353 G3 box; other site 1031711006354 Switch II region; other site 1031711006355 G4 box; other site 1031711006356 G5 box; other site 1031711006357 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1031711006358 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1031711006359 Trp docking motif [polypeptide binding]; other site 1031711006360 active site 1031711006361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1031711006362 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1031711006363 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1031711006364 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 1031711006365 dimer interface [polypeptide binding]; other site 1031711006366 motif 1; other site 1031711006367 active site 1031711006368 motif 2; other site 1031711006369 motif 3; other site 1031711006370 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 1031711006371 anticodon binding site; other site 1031711006372 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1031711006373 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1031711006374 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1031711006375 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1031711006376 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 1031711006377 non-specific DNA binding site [nucleotide binding]; other site 1031711006378 salt bridge; other site 1031711006379 sequence-specific DNA binding site [nucleotide binding]; other site 1031711006380 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1031711006381 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1031711006382 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 1031711006383 binding surface 1031711006384 TPR motif; other site 1031711006385 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 1031711006386 binding surface 1031711006387 TPR motif; other site 1031711006388 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1031711006389 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 1031711006390 FeS/SAM binding site; other site 1031711006391 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 1031711006392 active site 1031711006393 multimer interface [polypeptide binding]; other site 1031711006394 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1031711006395 YccA-like proteins; Region: YccA_like; cd10433 1031711006396 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1031711006397 TRAM domain; Region: TRAM; pfam01938 1031711006398 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 1031711006399 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 1031711006400 S-adenosylmethionine binding site [chemical binding]; other site 1031711006401 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1031711006402 putative catalytic site [active] 1031711006403 putative metal binding site [ion binding]; other site 1031711006404 putative phosphate binding site [ion binding]; other site 1031711006405 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1031711006406 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1031711006407 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711006408 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1031711006409 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 1031711006410 DNA binding residues [nucleotide binding] 1031711006411 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1031711006412 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711006413 Peptidase family M23; Region: Peptidase_M23; pfam01551 1031711006414 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1031711006415 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 1031711006416 S-adenosylmethionine binding site [chemical binding]; other site 1031711006417 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1031711006418 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1031711006419 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1031711006420 NAD(P) binding site [chemical binding]; other site 1031711006421 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711006422 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711006423 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1031711006424 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 1031711006425 dimer interface [polypeptide binding]; other site 1031711006426 conserved gate region; other site 1031711006427 putative PBP binding loops; other site 1031711006428 ABC-ATPase subunit interface; other site 1031711006429 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1031711006430 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1031711006431 Walker A/P-loop; other site 1031711006432 ATP binding site [chemical binding]; other site 1031711006433 Q-loop/lid; other site 1031711006434 ABC transporter signature motif; other site 1031711006435 Walker B; other site 1031711006436 D-loop; other site 1031711006437 H-loop/switch region; other site 1031711006438 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1031711006439 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 1031711006440 membrane-bound complex binding site; other site 1031711006441 hinge residues; other site 1031711006442 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1031711006443 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711006444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711006445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711006446 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1031711006447 putative dimerization interface [polypeptide binding]; other site 1031711006448 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1031711006449 recombination protein RecR; Reviewed; Region: recR; PRK00076 1031711006450 RecR protein; Region: RecR; pfam02132 1031711006451 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 1031711006452 putative active site [active] 1031711006453 putative metal-binding site [ion binding]; other site 1031711006454 tetramer interface [polypeptide binding]; other site 1031711006455 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1031711006456 hypothetical protein; Validated; Region: PRK00153 1031711006457 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1031711006458 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 1031711006459 Walker A motif; other site 1031711006460 ATP binding site [chemical binding]; other site 1031711006461 Walker B motif; other site 1031711006462 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1031711006463 arginine finger; other site 1031711006464 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1031711006465 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1031711006466 Family description; Region: UvrD_C_2; pfam13538 1031711006467 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1031711006468 similar to 3-truncated recombinational repair-like protein; RSPO_c02180 1031711006469 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 1031711006470 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711006471 catalytic residues [active] 1031711006472 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1031711006473 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1031711006474 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1031711006475 RNA binding site [nucleotide binding]; other site 1031711006476 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1031711006477 multimer interface [polypeptide binding]; other site 1031711006478 Walker A motif; other site 1031711006479 ATP binding site [chemical binding]; other site 1031711006480 Walker B motif; other site 1031711006481 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1031711006482 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 1031711006483 Walker A motif; other site 1031711006484 ATP binding site [chemical binding]; other site 1031711006485 Walker B motif; other site 1031711006486 arginine finger; other site 1031711006487 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1031711006488 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711006489 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 1031711006490 active site 1031711006491 phosphorylation site [posttranslational modification] 1031711006492 intermolecular recognition site; other site 1031711006493 dimerization interface [polypeptide binding]; other site 1031711006494 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 1031711006495 DNA binding residues [nucleotide binding] 1031711006496 dimerization interface [polypeptide binding]; other site 1031711006497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 1031711006498 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1031711006499 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1031711006500 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1031711006501 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1031711006502 putative efflux protein, MATE family; Region: matE; TIGR00797 1031711006503 cation binding site [ion binding]; other site 1031711006504 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1031711006505 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1031711006506 active site 1031711006507 HIGH motif; other site 1031711006508 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1031711006509 active site 1031711006510 KMSKS motif; other site 1031711006511 hypothetical protein; Provisional; Region: PRK10279 1031711006512 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1031711006513 nucleophile elbow; other site 1031711006514 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1031711006515 NlpC/P60 family; Region: NLPC_P60; pfam00877 1031711006516 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1031711006517 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711006518 Walker A/P-loop; other site 1031711006519 ATP binding site [chemical binding]; other site 1031711006520 Q-loop/lid; other site 1031711006521 ABC transporter signature motif; other site 1031711006522 Walker B; other site 1031711006523 D-loop; other site 1031711006524 H-loop/switch region; other site 1031711006525 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1031711006526 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711006527 Walker A/P-loop; other site 1031711006528 ATP binding site [chemical binding]; other site 1031711006529 Q-loop/lid; other site 1031711006530 ABC transporter signature motif; other site 1031711006531 Walker B; other site 1031711006532 D-loop; other site 1031711006533 H-loop/switch region; other site 1031711006534 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1031711006535 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1031711006536 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 1031711006537 dimer interface [polypeptide binding]; other site 1031711006538 conserved gate region; other site 1031711006539 putative PBP binding loops; other site 1031711006540 ABC-ATPase subunit interface; other site 1031711006541 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1031711006542 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 1031711006543 dimer interface [polypeptide binding]; other site 1031711006544 conserved gate region; other site 1031711006545 ABC-ATPase subunit interface; other site 1031711006546 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1031711006547 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_14; cd08497 1031711006548 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1031711006549 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1031711006550 NAD binding site [chemical binding]; other site 1031711006551 homotetramer interface [polypeptide binding]; other site 1031711006552 homodimer interface [polypeptide binding]; other site 1031711006553 substrate binding site [chemical binding]; other site 1031711006554 active site 1031711006555 aspartate kinase; Reviewed; Region: PRK06635 1031711006556 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1031711006557 putative nucleotide binding site [chemical binding]; other site 1031711006558 putative catalytic residues [active] 1031711006559 putative Mg ion binding site [ion binding]; other site 1031711006560 putative aspartate binding site [chemical binding]; other site 1031711006561 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1031711006562 putative allosteric regulatory site; other site 1031711006563 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1031711006564 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1031711006565 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 1031711006566 Ligand Binding Site [chemical binding]; other site 1031711006567 TilS substrate binding domain; Region: TilS; pfam09179 1031711006568 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1031711006569 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1031711006570 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1031711006571 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1031711006572 endonuclease III; Region: ENDO3c; smart00478 1031711006573 minor groove reading motif; other site 1031711006574 helix-hairpin-helix signature motif; other site 1031711006575 substrate binding pocket [chemical binding]; other site 1031711006576 active site 1031711006577 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1031711006578 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1031711006579 active site 1031711006580 HIGH motif; other site 1031711006581 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1031711006582 KMSKS motif; other site 1031711006583 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1031711006584 tRNA binding surface [nucleotide binding]; other site 1031711006585 anticodon binding site; other site 1031711006586 TPR repeat; Region: TPR_11; pfam13414 1031711006587 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 1031711006588 binding surface 1031711006589 TPR motif; other site 1031711006590 TPR repeat; Region: TPR_11; pfam13414 1031711006591 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1031711006592 substrate binding site [chemical binding]; other site 1031711006593 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1031711006594 substrate binding site [chemical binding]; other site 1031711006595 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711006596 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1031711006597 putative active site [active] 1031711006598 putative metal binding site [ion binding]; other site 1031711006599 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1031711006600 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 1031711006601 trimer interface [polypeptide binding]; other site 1031711006602 active site 1031711006603 substrate binding site [chemical binding]; other site 1031711006604 CoA binding site [chemical binding]; other site 1031711006605 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1031711006606 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1031711006607 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1031711006608 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1031711006609 active site 1031711006610 dimerization interface [polypeptide binding]; other site 1031711006611 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1031711006612 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 1031711006613 non-specific DNA binding site [nucleotide binding]; other site 1031711006614 salt bridge; other site 1031711006615 sequence-specific DNA binding site [nucleotide binding]; other site 1031711006616 Cupin domain; Region: Cupin_2; pfam07883 1031711006617 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1031711006618 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1031711006619 catalytic triad [active] 1031711006620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1031711006621 MOSC domain; Region: MOSC; pfam03473 1031711006622 3-alpha domain; Region: 3-alpha; pfam03475 1031711006623 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1031711006624 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1031711006625 dimer interface [polypeptide binding]; other site 1031711006626 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 1031711006627 dimerization interface [polypeptide binding]; other site 1031711006628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711006629 dimer interface [polypeptide binding]; other site 1031711006630 putative CheW interface [polypeptide binding]; other site 1031711006631 Cache domain; Region: Cache_2; pfam08269 1031711006632 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1031711006633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711006634 dimer interface [polypeptide binding]; other site 1031711006635 putative CheW interface [polypeptide binding]; other site 1031711006636 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 1031711006637 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1031711006638 active site 1031711006639 catalytic tetrad [active] 1031711006640 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1031711006641 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 1031711006642 putative substrate translocation pore; other site 1031711006643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711006644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711006645 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 1031711006646 dimerization interface [polypeptide binding]; other site 1031711006647 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1031711006648 MutS domain I; Region: MutS_I; pfam01624 1031711006649 MutS domain II; Region: MutS_II; pfam05188 1031711006650 MutS domain III; Region: MutS_III; pfam05192 1031711006651 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1031711006652 Walker A/P-loop; other site 1031711006653 ATP binding site [chemical binding]; other site 1031711006654 Q-loop/lid; other site 1031711006655 ABC transporter signature motif; other site 1031711006656 Walker B; other site 1031711006657 D-loop; other site 1031711006658 H-loop/switch region; other site 1031711006659 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711006660 active site 1031711006661 metal binding site [ion binding]; metal-binding site 1031711006662 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1031711006663 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1031711006664 Cupin-like domain; Region: Cupin_8; pfam13621 1031711006665 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1031711006666 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1031711006667 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1031711006668 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1031711006669 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1031711006670 dimer interface [polypeptide binding]; other site 1031711006671 active site 1031711006672 catalytic residue [active] 1031711006673 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 1031711006674 S-adenosylmethionine binding site [chemical binding]; other site 1031711006675 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1031711006676 active site 1031711006677 HIGH motif; other site 1031711006678 dimer interface [polypeptide binding]; other site 1031711006679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711006680 active site 1031711006681 KMSKS motif; other site 1031711006682 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 1031711006683 Peptidase family M50; Region: Peptidase_M50; pfam02163 1031711006684 active site 1031711006685 putative substrate binding region [chemical binding]; other site 1031711006686 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1031711006687 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1031711006688 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1031711006689 active site 1031711006690 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1031711006691 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1031711006692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711006693 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1031711006694 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 1031711006695 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1031711006696 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711006697 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711006698 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1031711006699 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1031711006700 dinuclear metal binding motif [ion binding]; other site 1031711006701 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1031711006702 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 1031711006703 trimer interface [polypeptide binding]; other site 1031711006704 putative metal binding site [ion binding]; other site 1031711006705 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1031711006706 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 1031711006707 dimerization interface [polypeptide binding]; other site 1031711006708 domain crossover interface; other site 1031711006709 redox-dependent activation switch; other site 1031711006710 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1031711006711 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1031711006712 enolase; Provisional; Region: eno; PRK00077 1031711006713 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 1031711006714 dimer interface [polypeptide binding]; other site 1031711006715 metal binding site [ion binding]; metal-binding site 1031711006716 substrate binding pocket [chemical binding]; other site 1031711006717 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1031711006718 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1031711006719 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1031711006720 CTP synthetase; Validated; Region: pyrG; PRK05380 1031711006721 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 1031711006722 Catalytic site [active] 1031711006723 active site 1031711006724 UTP binding site [chemical binding]; other site 1031711006725 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1031711006726 active site 1031711006727 putative oxyanion hole; other site 1031711006728 catalytic triad [active] 1031711006729 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711006730 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1031711006731 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1031711006732 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 1031711006733 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1031711006734 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1031711006735 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1031711006736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1031711006737 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1031711006738 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1031711006739 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1031711006740 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1031711006741 Competence protein; Region: Competence; pfam03772 1031711006742 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1031711006743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1031711006744 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1031711006745 active site 1031711006746 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1031711006747 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1031711006748 Walker A/P-loop; other site 1031711006749 ATP binding site [chemical binding]; other site 1031711006750 Q-loop/lid; other site 1031711006751 ABC transporter signature motif; other site 1031711006752 Walker B; other site 1031711006753 D-loop; other site 1031711006754 H-loop/switch region; other site 1031711006755 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1031711006756 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1031711006757 FtsX-like permease family; Region: FtsX; pfam02687 1031711006758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1031711006759 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1031711006760 DHH family; Region: DHH; pfam01368 1031711006761 DHHA1 domain; Region: DHHA1; pfam02272 1031711006762 Ferredoxin [Energy production and conversion]; Region: COG1146 1031711006763 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711006764 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1031711006765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 1031711006766 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711006767 MarR family; Region: MarR_2; pfam12802 1031711006768 Predicted membrane protein [Function unknown]; Region: COG2855 1031711006769 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1031711006770 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711006771 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 1031711006772 putative dimerization interface [polypeptide binding]; other site 1031711006773 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1031711006774 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1031711006775 Cytochrome P450; Region: p450; cl12078 1031711006776 Integrase core domain; Region: rve; pfam00665 1031711006777 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711006778 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 1031711006779 non-specific DNA binding site [nucleotide binding]; other site 1031711006780 salt bridge; other site 1031711006781 sequence-specific DNA binding site [nucleotide binding]; other site 1031711006782 Predicted permeases [General function prediction only]; Region: COG0679 1031711006783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711006784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711006785 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1031711006786 putative dimerization interface [polypeptide binding]; other site 1031711006787 benzoate transport; Region: 2A0115; TIGR00895 1031711006788 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 1031711006789 putative substrate translocation pore; other site 1031711006790 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 1031711006791 putative substrate translocation pore; other site 1031711006792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711006793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711006794 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1031711006795 substrate binding pocket [chemical binding]; other site 1031711006796 dimerization interface [polypeptide binding]; other site 1031711006797 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1031711006798 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 1031711006799 catalytic loop [active] 1031711006800 iron binding site [ion binding]; other site 1031711006801 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 1031711006802 FAD binding pocket [chemical binding]; other site 1031711006803 FAD binding motif [chemical binding]; other site 1031711006804 phosphate binding motif [ion binding]; other site 1031711006805 beta-alpha-beta structure motif; other site 1031711006806 NAD binding pocket [chemical binding]; other site 1031711006807 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1031711006808 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 1031711006809 iron-sulfur cluster [ion binding]; other site 1031711006810 [2Fe-2S] cluster binding site [ion binding]; other site 1031711006811 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1031711006812 putative alpha subunit interface [polypeptide binding]; other site 1031711006813 putative active site [active] 1031711006814 putative substrate binding site [chemical binding]; other site 1031711006815 Fe binding site [ion binding]; other site 1031711006816 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1031711006817 inter-subunit interface; other site 1031711006818 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1031711006819 [2Fe-2S] cluster binding site [ion binding]; other site 1031711006820 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 1031711006821 Cupin domain; Region: Cupin_2; pfam07883 1031711006822 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 1031711006823 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1031711006824 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1031711006825 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1031711006826 C-terminal domain interface [polypeptide binding]; other site 1031711006827 GSH binding site (G-site) [chemical binding]; other site 1031711006828 putative dimer interface [polypeptide binding]; other site 1031711006829 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1031711006830 dimer interface [polypeptide binding]; other site 1031711006831 N-terminal domain interface [polypeptide binding]; other site 1031711006832 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1031711006833 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711006834 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711006835 trimer interface [polypeptide binding]; other site 1031711006836 eyelet of channel; other site 1031711006837 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1031711006838 active site 1031711006839 catalytic residues [active] 1031711006840 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711006841 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711006842 trimer interface [polypeptide binding]; other site 1031711006843 eyelet of channel; other site 1031711006844 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1031711006845 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1031711006846 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1031711006847 putative active site [active] 1031711006848 putative catalytic site [active] 1031711006849 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 1031711006850 D-galactonate transporter; Region: 2A0114; TIGR00893 1031711006851 putative substrate translocation pore; other site 1031711006852 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1031711006853 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1031711006854 active site 1031711006855 tetramer interface [polypeptide binding]; other site 1031711006856 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1031711006857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711006858 DNA-binding site [nucleotide binding]; DNA binding site 1031711006859 FCD domain; Region: FCD; pfam07729 1031711006860 Predicted membrane protein [Function unknown]; Region: COG2261 1031711006861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711006862 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 1031711006863 DNA binding site [nucleotide binding] 1031711006864 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1031711006865 CHASE2 domain; Region: CHASE2; pfam05226 1031711006866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711006867 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 1031711006868 dimer interface [polypeptide binding]; other site 1031711006869 phosphorylation site [posttranslational modification] 1031711006870 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 1031711006871 ATP binding site [chemical binding]; other site 1031711006872 G-X-G motif; other site 1031711006873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1031711006874 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711006875 FecR protein; Region: FecR; pfam04773 1031711006876 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711006877 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 1031711006878 active site 1031711006879 phosphorylation site [posttranslational modification] 1031711006880 intermolecular recognition site; other site 1031711006881 dimerization interface [polypeptide binding]; other site 1031711006882 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 1031711006883 DNA binding site [nucleotide binding] 1031711006884 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1031711006885 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1031711006886 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1031711006887 GIY-YIG motif/motif A; other site 1031711006888 active site 1031711006889 catalytic site [active] 1031711006890 putative DNA binding site [nucleotide binding]; other site 1031711006891 metal binding site [ion binding]; metal-binding site 1031711006892 UvrB/uvrC motif; Region: UVR; pfam02151 1031711006893 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1031711006894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1031711006895 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1031711006896 elongation factor P; Validated; Region: PRK00529 1031711006897 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1031711006898 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 1031711006899 RNA binding site [nucleotide binding]; other site 1031711006900 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 1031711006901 RNA binding site [nucleotide binding]; other site 1031711006902 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1031711006903 beta-hexosaminidase; Provisional; Region: PRK05337 1031711006904 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1031711006905 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1031711006906 active site 1031711006907 hydrophilic channel; other site 1031711006908 dimerization interface [polypeptide binding]; other site 1031711006909 catalytic residues [active] 1031711006910 active site lid [active] 1031711006911 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1031711006912 Recombination protein O N terminal; Region: RecO_N; pfam11967 1031711006913 Recombination protein O C terminal; Region: RecO_C; pfam02565 1031711006914 GTPase Era; Reviewed; Region: era; PRK00089 1031711006915 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1031711006916 G1 box; other site 1031711006917 GTP/Mg2+ binding site [chemical binding]; other site 1031711006918 Switch I region; other site 1031711006919 G2 box; other site 1031711006920 Switch II region; other site 1031711006921 G3 box; other site 1031711006922 G4 box; other site 1031711006923 G5 box; other site 1031711006924 KH domain; Region: KH_2; pfam07650 1031711006925 ribonuclease III; Reviewed; Region: rnc; PRK00102 1031711006926 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 1031711006927 dimerization interface [polypeptide binding]; other site 1031711006928 active site 1031711006929 metal binding site [ion binding]; metal-binding site 1031711006930 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 1031711006931 dsRNA binding site [nucleotide binding]; other site 1031711006932 signal peptidase I; Provisional; Region: PRK10861 1031711006933 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 1031711006934 Catalytic site [active] 1031711006935 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 1031711006936 GTP-binding protein LepA; Provisional; Region: PRK05433 1031711006937 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1031711006938 G1 box; other site 1031711006939 putative GEF interaction site [polypeptide binding]; other site 1031711006940 GTP/Mg2+ binding site [chemical binding]; other site 1031711006941 Switch I region; other site 1031711006942 G2 box; other site 1031711006943 G3 box; other site 1031711006944 Switch II region; other site 1031711006945 G4 box; other site 1031711006946 G5 box; other site 1031711006947 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 1031711006948 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 1031711006949 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1031711006950 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1031711006951 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1031711006952 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1031711006953 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 1031711006954 protein binding site [polypeptide binding]; other site 1031711006955 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 1031711006956 protein binding site [polypeptide binding]; other site 1031711006957 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1031711006958 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1031711006959 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1031711006960 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1031711006961 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1031711006962 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711006963 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 1031711006964 DNA binding residues [nucleotide binding] 1031711006965 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1031711006966 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 1031711006967 dimer interface [polypeptide binding]; other site 1031711006968 active site 1031711006969 acyl carrier protein; Provisional; Region: acpP; PRK00982 1031711006970 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1031711006971 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1031711006972 NAD(P) binding site [chemical binding]; other site 1031711006973 homotetramer interface [polypeptide binding]; other site 1031711006974 homodimer interface [polypeptide binding]; other site 1031711006975 active site 1031711006976 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1031711006977 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1031711006978 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1031711006979 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 1031711006980 dimer interface [polypeptide binding]; other site 1031711006981 active site 1031711006982 CoA binding pocket [chemical binding]; other site 1031711006983 putative phosphate acyltransferase; Provisional; Region: PRK05331 1031711006984 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1031711006985 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1031711006986 Maf-like protein; Region: Maf; pfam02545 1031711006987 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 1031711006988 active site 1031711006989 dimer interface [polypeptide binding]; other site 1031711006990 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1031711006991 putative SAM binding site [chemical binding]; other site 1031711006992 homodimer interface [polypeptide binding]; other site 1031711006993 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1031711006994 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1031711006995 tandem repeat interface [polypeptide binding]; other site 1031711006996 oligomer interface [polypeptide binding]; other site 1031711006997 active site residues [active] 1031711006998 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 1031711006999 iron-sulfur cluster [ion binding]; other site 1031711007000 [2Fe-2S] cluster binding site [ion binding]; other site 1031711007001 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1031711007002 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 1031711007003 motif II; other site 1031711007004 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1031711007005 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 1031711007006 RNA binding surface [nucleotide binding]; other site 1031711007007 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1031711007008 active site 1031711007009 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1031711007010 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 1031711007011 homodimer interface [polypeptide binding]; other site 1031711007012 oligonucleotide binding site [chemical binding]; other site 1031711007013 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1031711007014 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 1031711007015 FeS/SAM binding site; other site 1031711007016 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1031711007017 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1031711007018 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1031711007019 GTP binding site; other site 1031711007020 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1031711007021 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 1031711007022 dimer interface [polypeptide binding]; other site 1031711007023 putative functional site; other site 1031711007024 putative MPT binding site; other site 1031711007025 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1031711007026 RmuC family; Region: RmuC; pfam02646 1031711007027 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1031711007028 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1031711007029 dimerization interface [polypeptide binding]; other site 1031711007030 ligand binding site [chemical binding]; other site 1031711007031 NADP binding site [chemical binding]; other site 1031711007032 catalytic site [active] 1031711007033 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1031711007034 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1031711007035 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1031711007036 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1031711007037 active site 1031711007038 peptide chain release factor 2; Provisional; Region: PRK08787 1031711007039 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1031711007040 RF-1 domain; Region: RF-1; pfam00472 1031711007041 short chain dehydrogenase; Provisional; Region: PRK07023 1031711007042 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 1031711007043 NADP binding site [chemical binding]; other site 1031711007044 homodimer interface [polypeptide binding]; other site 1031711007045 active site 1031711007046 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1031711007047 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 1031711007048 dimer interface [polypeptide binding]; other site 1031711007049 putative anticodon binding site; other site 1031711007050 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 1031711007051 motif 1; other site 1031711007052 active site 1031711007053 motif 2; other site 1031711007054 motif 3; other site 1031711007055 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1031711007056 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1031711007057 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 1031711007058 catalytic loop [active] 1031711007059 iron binding site [ion binding]; other site 1031711007060 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1031711007061 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1031711007062 nucleotide binding site [chemical binding]; other site 1031711007063 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1031711007064 SBD interface [polypeptide binding]; other site 1031711007065 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1031711007066 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 1031711007067 HSP70 interaction site [polypeptide binding]; other site 1031711007068 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1031711007069 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1031711007070 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1031711007071 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1031711007072 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1031711007073 trimerization site [polypeptide binding]; other site 1031711007074 active site 1031711007075 cysteine desulfurase; Provisional; Region: PRK14012 1031711007076 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1031711007077 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711007078 catalytic residue [active] 1031711007079 Predicted transcriptional regulator [Transcription]; Region: COG1959 1031711007080 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1031711007081 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 1031711007082 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1031711007083 ligand binding site [chemical binding]; other site 1031711007084 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1031711007085 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1031711007086 Walker A/P-loop; other site 1031711007087 ATP binding site [chemical binding]; other site 1031711007088 Q-loop/lid; other site 1031711007089 ABC transporter signature motif; other site 1031711007090 Walker B; other site 1031711007091 D-loop; other site 1031711007092 H-loop/switch region; other site 1031711007093 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1031711007094 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711007095 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1031711007096 TM-ABC transporter signature motif; other site 1031711007097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711007098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711007099 DNA binding site [nucleotide binding] 1031711007100 domain linker motif; other site 1031711007101 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1031711007102 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1031711007103 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1031711007104 substrate binding site [chemical binding]; other site 1031711007105 dimer interface [polypeptide binding]; other site 1031711007106 ATP binding site [chemical binding]; other site 1031711007107 Site-specific recombinase; Region: SpecificRecomb; cl15411 1031711007108 excinuclease ABC subunit B; Provisional; Region: PRK05298 1031711007109 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 1031711007110 ATP binding site [chemical binding]; other site 1031711007111 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 1031711007112 nucleotide binding region [chemical binding]; other site 1031711007113 ATP-binding site [chemical binding]; other site 1031711007114 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1031711007115 UvrB/uvrC motif; Region: UVR; pfam02151 1031711007116 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1031711007117 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 1031711007118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007119 homodimer interface [polypeptide binding]; other site 1031711007120 catalytic residue [active] 1031711007121 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1031711007122 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1031711007123 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1031711007124 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1031711007125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711007126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711007127 ferredoxin; Provisional; Region: PRK06991 1031711007128 Putative Fe-S cluster; Region: FeS; pfam04060 1031711007129 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711007130 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1031711007131 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1031711007132 minor groove reading motif; other site 1031711007133 helix-hairpin-helix signature motif; other site 1031711007134 substrate binding pocket [chemical binding]; other site 1031711007135 active site 1031711007136 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1031711007137 Nitroreductase-like family 5. 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_5; cd02148 1031711007138 putative FMN binding site [chemical binding]; other site 1031711007139 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1031711007140 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1031711007141 EamA-like transporter family; Region: EamA; pfam00892 1031711007142 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1031711007143 EamA-like transporter family; Region: EamA; pfam00892 1031711007144 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1031711007145 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1031711007146 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1031711007147 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1031711007148 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 1031711007149 Walker A motif; other site 1031711007150 ATP binding site [chemical binding]; other site 1031711007151 Walker B motif; other site 1031711007152 arginine finger; other site 1031711007153 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1031711007154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1031711007155 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 1031711007156 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1031711007157 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1031711007158 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 1031711007159 dimerization interface [polypeptide binding]; other site 1031711007160 putative DNA binding site [nucleotide binding]; other site 1031711007161 putative Zn2+ binding site [ion binding]; other site 1031711007162 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1031711007163 putative hydrophobic ligand binding site [chemical binding]; other site 1031711007164 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711007165 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711007166 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1031711007167 N-terminal domain interface [polypeptide binding]; other site 1031711007168 dimer interface [polypeptide binding]; other site 1031711007169 substrate binding pocket (H-site) [chemical binding]; other site 1031711007170 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1031711007171 putative active site [active] 1031711007172 heat shock protein 90; Provisional; Region: PRK05218 1031711007173 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 1031711007174 ATP binding site [chemical binding]; other site 1031711007175 Mg2+ binding site [ion binding]; other site 1031711007176 G-X-G motif; other site 1031711007177 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 1031711007178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711007179 DNA-binding site [nucleotide binding]; DNA binding site 1031711007180 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 1031711007181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007182 homodimer interface [polypeptide binding]; other site 1031711007183 catalytic residue [active] 1031711007184 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1031711007185 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1031711007186 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711007187 EamA-like transporter family; Region: EamA; pfam00892 1031711007188 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 1031711007189 homotrimer interaction site [polypeptide binding]; other site 1031711007190 putative active site [active] 1031711007191 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1031711007192 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 1031711007193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007194 homodimer interface [polypeptide binding]; other site 1031711007195 catalytic residue [active] 1031711007196 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711007197 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1031711007198 putative C-terminal domain interface [polypeptide binding]; other site 1031711007199 putative GSH binding site (G-site) [chemical binding]; other site 1031711007200 putative dimer interface [polypeptide binding]; other site 1031711007201 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1031711007202 putative N-terminal domain interface [polypeptide binding]; other site 1031711007203 putative dimer interface [polypeptide binding]; other site 1031711007204 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711007205 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 1031711007206 MASE1; Region: MASE1; pfam05231 1031711007207 PAS fold; Region: PAS_3; pfam08447 1031711007208 hypothetical protein; Provisional; Region: PRK10279 1031711007209 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1031711007210 active site 1031711007211 nucleophile elbow; other site 1031711007212 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1031711007213 Surface antigen; Region: Bac_surface_Ag; pfam01103 1031711007214 L-lactate permease; Region: Lactate_perm; cl00701 1031711007215 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1031711007216 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1031711007217 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1031711007218 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1031711007219 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 1031711007220 CAP-like domain; other site 1031711007221 active site 1031711007222 primary dimer interface [polypeptide binding]; other site 1031711007223 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007224 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711007225 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 1031711007226 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711007227 catalytic residue [active] 1031711007228 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1031711007229 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 1031711007230 ATP binding site [chemical binding]; other site 1031711007231 Mg2+ binding site [ion binding]; other site 1031711007232 G-X-G motif; other site 1031711007233 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 1031711007234 anchoring element; other site 1031711007235 dimer interface [polypeptide binding]; other site 1031711007236 ATP binding site [chemical binding]; other site 1031711007237 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1031711007238 active site 1031711007239 metal binding site [ion binding]; metal-binding site 1031711007240 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1031711007241 ABC transporter ATPase component; Reviewed; Region: PRK11147 1031711007242 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711007243 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711007244 ABC transporter; Region: ABC_tran_2; pfam12848 1031711007245 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1031711007246 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1031711007247 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 1031711007248 substrate binding pocket [chemical binding]; other site 1031711007249 membrane-bound complex binding site; other site 1031711007250 hinge residues; other site 1031711007251 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 1031711007252 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1031711007253 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1031711007254 putative ion selectivity filter; other site 1031711007255 putative pore gating glutamate residue; other site 1031711007256 putative H+/Cl- coupling transport residue; other site 1031711007257 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 1031711007258 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1031711007259 ATP binding site [chemical binding]; other site 1031711007260 Mg++ binding site [ion binding]; other site 1031711007261 motif III; other site 1031711007262 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 1031711007263 nucleotide binding region [chemical binding]; other site 1031711007264 ATP-binding site [chemical binding]; other site 1031711007265 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1031711007266 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1031711007267 Uncharacterized conserved protein [Function unknown]; Region: COG4301 1031711007268 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1031711007269 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1031711007270 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 1031711007271 hypothetical protein; Provisional; Region: PRK06815 1031711007272 tetramer interface [polypeptide binding]; other site 1031711007273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007274 catalytic residue [active] 1031711007275 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1031711007276 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1031711007277 dimerization interface [polypeptide binding]; other site 1031711007278 active site 1031711007279 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1031711007280 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1031711007281 folate binding site [chemical binding]; other site 1031711007282 NADP+ binding site [chemical binding]; other site 1031711007283 peptidase PmbA; Provisional; Region: PRK11040 1031711007284 hypothetical protein; Provisional; Region: PRK05255 1031711007285 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 1031711007286 MPT binding site; other site 1031711007287 trimer interface [polypeptide binding]; other site 1031711007288 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1031711007289 catalytic site [active] 1031711007290 putative active site [active] 1031711007291 putative substrate binding site [chemical binding]; other site 1031711007292 dimer interface [polypeptide binding]; other site 1031711007293 Peptidase family M48; Region: Peptidase_M48; cl12018 1031711007294 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1031711007295 GTPase RsgA; Reviewed; Region: PRK00098 1031711007296 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 1031711007297 RNA binding site [nucleotide binding]; other site 1031711007298 homodimer interface [polypeptide binding]; other site 1031711007299 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1031711007300 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1031711007301 GTP/Mg2+ binding site [chemical binding]; other site 1031711007302 G4 box; other site 1031711007303 G5 box; other site 1031711007304 G1 box; other site 1031711007305 Switch I region; other site 1031711007306 G2 box; other site 1031711007307 G3 box; other site 1031711007308 Switch II region; other site 1031711007309 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1031711007310 CobD/CbiB family protein; Provisional; Region: PRK07630 1031711007311 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1031711007312 putative active site [active] 1031711007313 putative CoA binding site [chemical binding]; other site 1031711007314 nudix motif; other site 1031711007315 metal binding site [ion binding]; metal-binding site 1031711007316 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1031711007317 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1031711007318 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1031711007319 RimM N-terminal domain; Region: RimM; pfam01782 1031711007320 PRC-barrel domain; Region: PRC; pfam05239 1031711007321 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1031711007322 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1031711007323 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1031711007324 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1031711007325 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 1031711007326 FeS/SAM binding site; other site 1031711007327 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1031711007328 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1031711007329 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711007330 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1031711007331 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711007332 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1031711007333 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1031711007334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711007335 active site 1031711007336 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1031711007337 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 1031711007338 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 1031711007339 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1031711007340 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 1031711007341 Ligand binding site [chemical binding]; other site 1031711007342 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1031711007343 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1031711007344 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1031711007345 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 1031711007346 dimer interface [polypeptide binding]; other site 1031711007347 conserved gate region; other site 1031711007348 ABC-ATPase subunit interface; other site 1031711007349 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1031711007350 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1031711007351 Walker A/P-loop; other site 1031711007352 ATP binding site [chemical binding]; other site 1031711007353 Q-loop/lid; other site 1031711007354 ABC transporter signature motif; other site 1031711007355 Walker B; other site 1031711007356 D-loop; other site 1031711007357 H-loop/switch region; other site 1031711007358 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1031711007359 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1031711007360 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1031711007361 putative active site [active] 1031711007362 Zn binding site [ion binding]; other site 1031711007363 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1031711007364 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 1031711007365 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711007366 cysteine synthase B; Region: cysM; TIGR01138 1031711007367 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 1031711007368 dimer interface [polypeptide binding]; other site 1031711007369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007370 catalytic residue [active] 1031711007371 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1031711007372 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1031711007373 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1031711007374 NADP binding site [chemical binding]; other site 1031711007375 homopentamer interface [polypeptide binding]; other site 1031711007376 substrate binding site [chemical binding]; other site 1031711007377 active site 1031711007378 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1031711007379 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1031711007380 putative ribose interaction site [chemical binding]; other site 1031711007381 putative ADP binding site [chemical binding]; other site 1031711007382 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1031711007383 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711007384 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1031711007385 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1031711007386 potential frameshift: common BLAST hit: gi|17545631|ref|NP_519033.1| tetratricopeptide repeat protein 1031711007387 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 1031711007388 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1031711007389 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 1031711007390 binding surface 1031711007391 TPR motif; other site 1031711007392 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1031711007393 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 1031711007394 IHF dimer interface [polypeptide binding]; other site 1031711007395 IHF - DNA interface [nucleotide binding]; other site 1031711007396 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1031711007397 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 1031711007398 RNA binding site [nucleotide binding]; other site 1031711007399 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 1031711007400 RNA binding site [nucleotide binding]; other site 1031711007401 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 1031711007402 RNA binding site [nucleotide binding]; other site 1031711007403 S1_RPS1_repeat_ec4: 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_ec4; cd05689 1031711007404 RNA binding site [nucleotide binding]; other site 1031711007405 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1031711007406 RNA binding site [nucleotide binding]; other site 1031711007407 S1_RPS1_repeat_ec6: 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_ec6; cd05691 1031711007408 RNA binding site [nucleotide binding]; other site 1031711007409 cytidylate kinase; Provisional; Region: cmk; PRK00023 1031711007410 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 1031711007411 CMP-binding site; other site 1031711007412 The sites determining sugar specificity; other site 1031711007413 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1031711007414 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 1031711007415 hinge; other site 1031711007416 active site 1031711007417 prephenate dehydrogenase; Validated; Region: PRK08507 1031711007418 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1031711007419 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 1031711007420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007421 homodimer interface [polypeptide binding]; other site 1031711007422 catalytic residue [active] 1031711007423 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 1031711007424 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1031711007425 Prephenate dehydratase; Region: PDT; pfam00800 1031711007426 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 1031711007427 putative L-Phe binding site [chemical binding]; other site 1031711007428 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 1031711007429 homodimer interface [polypeptide binding]; other site 1031711007430 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1031711007431 substrate-cofactor binding pocket; other site 1031711007432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007433 catalytic residue [active] 1031711007434 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1031711007435 DNA gyrase subunit A; Validated; Region: PRK05560 1031711007436 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 1031711007437 CAP-like domain; other site 1031711007438 active site 1031711007439 primary dimer interface [polypeptide binding]; other site 1031711007440 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007441 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007442 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1031711007446 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1031711007447 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711007448 ligand binding site [chemical binding]; other site 1031711007449 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1031711007450 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1031711007451 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 1031711007452 S-adenosylmethionine binding site [chemical binding]; other site 1031711007453 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1031711007454 Class I aldolases; Region: Aldolase_Class_I; cl17187 1031711007455 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 1031711007456 motif II; other site 1031711007457 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1031711007458 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1031711007459 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1031711007460 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1031711007461 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1031711007462 ligand binding site [chemical binding]; other site 1031711007463 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1031711007464 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1031711007465 catalytic residues [active] 1031711007466 catalytic nucleophile [active] 1031711007467 Presynaptic Site I dimer interface [polypeptide binding]; other site 1031711007468 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1031711007469 Synaptic Flat tetramer interface [polypeptide binding]; other site 1031711007470 Synaptic Site I dimer interface [polypeptide binding]; other site 1031711007471 DNA binding site [nucleotide binding] 1031711007472 Recombinase; Region: Recombinase; pfam07508 1031711007473 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1031711007474 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 1031711007475 similar to truncated putative type III effector protein; RSPO_c02466 1031711007476 PAAR motif; Region: PAAR_motif; pfam05488 1031711007477 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1031711007478 Sel1-like repeats; Region: SEL1; smart00671 1031711007479 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711007480 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1031711007481 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711007482 putative active site [active] 1031711007483 catalytic site [active] 1031711007484 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711007485 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711007486 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1031711007487 putative active site [active] 1031711007488 catalytic site [active] 1031711007489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711007490 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711007491 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711007492 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1031711007493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1031711007494 citrate-proton symporter; Provisional; Region: PRK15075 1031711007495 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 1031711007496 putative substrate translocation pore; other site 1031711007497 similar to truncated conserved membrane protein; RSPO_c02474 1031711007498 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711007499 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711007500 putative ligand binding site [chemical binding]; other site 1031711007501 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711007502 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 1031711007503 non-specific DNA binding site [nucleotide binding]; other site 1031711007504 salt bridge; other site 1031711007505 sequence-specific DNA binding site [nucleotide binding]; other site 1031711007506 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 1031711007507 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1031711007508 catalytic residues [active] 1031711007509 Phage-related minor tail protein [Function unknown]; Region: COG5281 1031711007510 tape measure domain; Region: tape_meas_nterm; TIGR02675 1031711007511 prevent-host-death family protein; Region: phd_fam; TIGR01552 1031711007512 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1031711007513 oligomeric interface; other site 1031711007514 putative active site [active] 1031711007515 homodimer interface [polypeptide binding]; other site 1031711007516 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711007517 H-NS histone family; Region: Histone_HNS; pfam00816 1031711007518 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711007519 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1031711007520 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1031711007521 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1031711007522 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1031711007523 tandem repeat interface [polypeptide binding]; other site 1031711007524 oligomer interface [polypeptide binding]; other site 1031711007525 active site residues [active] 1031711007526 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1031711007527 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1031711007528 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1031711007529 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1031711007530 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 1031711007531 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1031711007532 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711007533 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711007534 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1031711007535 DNA methylase; Region: N6_N4_Mtase; pfam01555 1031711007536 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711007537 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711007538 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1031711007539 DNA methylase; Region: N6_N4_Mtase; pfam01555 1031711007540 hypothetical protein; Validated; Region: PRK07078 1031711007541 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1031711007542 active site 1031711007543 metal binding site [ion binding]; metal-binding site 1031711007544 interdomain interaction site; other site 1031711007545 D5 N terminal like; Region: D5_N; pfam08706 1031711007546 late transcription factor VLTF-2; Provisional; Region: PHA03073 1031711007547 AAA domain; Region: AAA_24; pfam13479 1031711007548 Helix-turn-helix domain; Region: HTH_17; pfam12728 1031711007549 Transposase; Region: HTH_Tnp_1; cl17663 1031711007550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711007551 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711007552 Integrase core domain; Region: rve; pfam00665 1031711007553 Integrase core domain; Region: rve_3; pfam13683 1031711007554 transposase/IS protein; Provisional; Region: PRK09183 1031711007555 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711007556 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 1031711007557 Walker A motif; other site 1031711007558 ATP binding site [chemical binding]; other site 1031711007559 Walker B motif; other site 1031711007560 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 1031711007561 DNA-binding interface [nucleotide binding]; DNA binding site 1031711007562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711007563 Integrase core domain; Region: rve; pfam00665 1031711007564 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1031711007565 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 1031711007566 putative hydrophobic ligand binding site [chemical binding]; other site 1031711007567 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 1031711007568 dimerization interface [polypeptide binding]; other site 1031711007569 putative DNA binding site [nucleotide binding]; other site 1031711007570 putative Zn2+ binding site [ion binding]; other site 1031711007571 LysR family transcriptional regulator; Provisional; Region: PRK14997 1031711007572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711007573 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711007574 putative effector binding pocket; other site 1031711007575 dimerization interface [polypeptide binding]; other site 1031711007576 short chain dehydrogenase; Provisional; Region: PRK12747 1031711007577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711007578 NAD(P) binding site [chemical binding]; other site 1031711007579 active site 1031711007580 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1031711007581 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; cd02933 1031711007582 FMN binding site [chemical binding]; other site 1031711007583 active site 1031711007584 substrate binding site [chemical binding]; other site 1031711007585 catalytic residue [active] 1031711007586 Pirin-related protein [General function prediction only]; Region: COG1741 1031711007587 Pirin; Region: Pirin; pfam02678 1031711007588 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1031711007589 potential frameshift: common BLAST hit: gi|300692158|ref|YP_003753153.1| type III effector protein (Skwp5) 1031711007590 hypothetical protein; Validated; Region: PRK09169 1031711007591 hypothetical protein; Validated; Region: PRK09169 1031711007592 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711007593 metal binding triad [ion binding]; metal-binding site 1031711007594 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711007595 metal binding triad [ion binding]; metal-binding site 1031711007596 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 1031711007597 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1031711007598 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1031711007599 C-terminal domain interface [polypeptide binding]; other site 1031711007600 GSH binding site (G-site) [chemical binding]; other site 1031711007601 dimer interface [polypeptide binding]; other site 1031711007602 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1031711007603 dimer interface [polypeptide binding]; other site 1031711007604 N-terminal domain interface [polypeptide binding]; other site 1031711007605 substrate binding pocket (H-site) [chemical binding]; other site 1031711007606 Predicted transcriptional regulators [Transcription]; Region: COG1733 1031711007607 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1031711007608 Predicted integral membrane protein [Function unknown]; Region: COG5455 1031711007609 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 1031711007610 Ligand Binding Site [chemical binding]; other site 1031711007611 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711007612 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1031711007613 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1031711007614 Moco binding site; other site 1031711007615 metal coordination site [ion binding]; other site 1031711007616 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 1031711007617 CPxP motif; other site 1031711007618 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1031711007619 nudix motif; other site 1031711007620 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1031711007621 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 1031711007622 tetramer interface [polypeptide binding]; other site 1031711007623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007624 catalytic residue [active] 1031711007625 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1031711007626 active site 1 [active] 1031711007627 dimer interface [polypeptide binding]; other site 1031711007628 hexamer interface [polypeptide binding]; other site 1031711007629 active site 2 [active] 1031711007630 aldolase II superfamily protein; Provisional; Region: PRK07044 1031711007631 intersubunit interface [polypeptide binding]; other site 1031711007632 active site 1031711007633 Zn2+ binding site [ion binding]; other site 1031711007634 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 1031711007635 putative substrate translocation pore; other site 1031711007636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711007637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711007638 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 1031711007639 dimerization interface [polypeptide binding]; other site 1031711007640 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1031711007641 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1031711007642 dimer interface [polypeptide binding]; other site 1031711007643 active site residues [active] 1031711007644 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1031711007645 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1031711007646 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1031711007647 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711007648 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711007649 N-terminal plug; other site 1031711007650 ligand-binding site [chemical binding]; other site 1031711007651 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 1031711007652 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 1031711007653 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1031711007654 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 1031711007655 motif 1; other site 1031711007656 active site 1031711007657 motif 2; other site 1031711007658 motif 3; other site 1031711007659 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1031711007660 DHHA1 domain; Region: DHHA1; pfam02272 1031711007661 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1031711007662 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711007663 Predicted membrane protein [Function unknown]; Region: COG3556 1031711007664 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1031711007665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1031711007666 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1031711007667 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1031711007668 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711007669 active site 1031711007670 HIGH motif; other site 1031711007671 nucleotide binding site [chemical binding]; other site 1031711007672 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1031711007673 KMSKS motif; other site 1031711007674 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1031711007675 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1031711007676 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 1031711007677 Predicted membrane protein [Function unknown]; Region: COG3686 1031711007678 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1031711007679 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1031711007680 YaeQ protein; Region: YaeQ; pfam07152 1031711007681 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1031711007682 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1031711007683 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1031711007684 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 1031711007685 putative active site pocket [active] 1031711007686 dimerization interface [polypeptide binding]; other site 1031711007687 putative catalytic residue [active] 1031711007688 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711007689 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711007690 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711007691 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1031711007692 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711007693 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1031711007694 acyl-activating enzyme (AAE) consensus motif; other site 1031711007695 putative AMP binding site [chemical binding]; other site 1031711007696 putative active site [active] 1031711007697 putative CoA binding site [chemical binding]; other site 1031711007698 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1031711007699 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 1031711007700 catalytic residues [active] 1031711007701 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1031711007702 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1031711007703 catalytic residues [active] 1031711007704 Hemerythrin; Region: Hemerythrin; cd12107 1031711007705 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1031711007706 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1031711007707 dimer interface [polypeptide binding]; other site 1031711007708 active site 1031711007709 heme binding site [chemical binding]; other site 1031711007710 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1031711007711 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1031711007712 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 1031711007713 putative ATP binding site [chemical binding]; other site 1031711007714 putative substrate interface [chemical binding]; other site 1031711007715 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1031711007716 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1031711007717 Cytochrome c; Region: Cytochrom_C; cl11414 1031711007718 similar to 5-truncated putative hydrolase glycosidase protein; RSPO_c02596 1031711007719 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1031711007720 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1031711007721 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1031711007722 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1031711007723 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1031711007724 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1031711007725 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 1031711007726 S-adenosylmethionine binding site [chemical binding]; other site 1031711007727 Protein of unknown function DUF72; Region: DUF72; cl00777 1031711007728 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1031711007729 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1031711007730 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1031711007731 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711007732 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 1031711007733 putative DNA binding site [nucleotide binding]; other site 1031711007734 putative Zn2+ binding site [ion binding]; other site 1031711007735 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711007736 arylformamidase; Region: trp_arylform; TIGR03035 1031711007737 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1031711007738 kynureninase; Region: kynureninase; TIGR01814 1031711007739 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711007740 catalytic residue [active] 1031711007741 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1031711007742 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711007743 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711007744 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711007745 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1031711007746 FAD binding site [chemical binding]; other site 1031711007747 substrate binding pocket [chemical binding]; other site 1031711007748 catalytic base [active] 1031711007749 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1031711007750 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1031711007751 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1031711007752 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1031711007753 dimer interface [polypeptide binding]; other site 1031711007754 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1031711007755 catalytic triad [active] 1031711007756 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1031711007757 Predicted membrane protein [Function unknown]; Region: COG5393 1031711007758 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1031711007759 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1031711007760 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711007761 Walker A/P-loop; other site 1031711007762 ATP binding site [chemical binding]; other site 1031711007763 Q-loop/lid; other site 1031711007764 ABC transporter signature motif; other site 1031711007765 Walker B; other site 1031711007766 D-loop; other site 1031711007767 H-loop/switch region; other site 1031711007768 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1031711007769 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1031711007770 nudix motif; other site 1031711007771 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1031711007772 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1031711007773 active site 1031711007774 iron coordination sites [ion binding]; other site 1031711007775 substrate binding pocket [chemical binding]; other site 1031711007776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711007777 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1031711007778 active site 1031711007779 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1031711007780 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 1031711007781 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1031711007782 active site 1031711007783 substrate binding site [chemical binding]; other site 1031711007784 Mg2+ binding site [ion binding]; other site 1031711007785 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1031711007786 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1031711007787 Predicted transporter component [General function prediction only]; Region: COG2391 1031711007788 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 1031711007789 Ligand Binding Site [chemical binding]; other site 1031711007790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1031711007791 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711007792 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1031711007793 ligand binding site [chemical binding]; other site 1031711007794 translocation protein TolB; Provisional; Region: tolB; PRK02889 1031711007795 TolB amino-terminal domain; Region: TolB_N; pfam04052 1031711007796 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1031711007797 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1031711007798 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1031711007799 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1031711007800 TolA protein; Region: tolA_full; TIGR02794 1031711007801 TonB C terminal; Region: TonB_2; pfam13103 1031711007802 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1031711007803 TolR protein; Region: tolR; TIGR02801 1031711007804 TolQ protein; Region: tolQ; TIGR02796 1031711007805 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 1031711007806 active site 1031711007807 malonic semialdehyde reductase; Provisional; Region: PRK10538 1031711007808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711007809 NAD(P) binding site [chemical binding]; other site 1031711007810 active site 1031711007811 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1031711007812 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 1031711007813 dimer interface [polypeptide binding]; other site 1031711007814 active site 1031711007815 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1031711007816 folate binding site [chemical binding]; other site 1031711007817 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1031711007818 ATP cone domain; Region: ATP-cone; pfam03477 1031711007819 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1031711007820 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1031711007821 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1031711007822 PilX N-terminal; Region: PilX_N; pfam14341 1031711007823 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 1031711007824 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1031711007825 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1031711007826 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1031711007827 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1031711007828 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1031711007829 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1031711007830 Type II transport protein GspH; Region: GspH; pfam12019 1031711007831 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1031711007832 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1031711007833 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1031711007834 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 1031711007835 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1031711007836 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1031711007837 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1031711007838 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1031711007839 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1031711007840 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1031711007841 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1031711007842 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 1031711007843 catalytic motif [active] 1031711007844 Zn binding site [ion binding]; other site 1031711007845 RibD C-terminal domain; Region: RibD_C; cl17279 1031711007846 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1031711007847 Lumazine binding domain; Region: Lum_binding; pfam00677 1031711007848 Lumazine binding domain; Region: Lum_binding; pfam00677 1031711007849 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1031711007850 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1031711007851 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1031711007852 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 1031711007853 homopentamer interface [polypeptide binding]; other site 1031711007854 active site 1031711007855 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1031711007856 aminotransferase; Validated; Region: PRK07337 1031711007857 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 1031711007858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711007859 homodimer interface [polypeptide binding]; other site 1031711007860 catalytic residue [active] 1031711007861 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711007862 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 1031711007863 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711007864 catalytic residue [active] 1031711007865 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1031711007866 succinic semialdehyde dehydrogenase; Region: PLN02278 1031711007867 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1031711007868 tetramerization interface [polypeptide binding]; other site 1031711007869 NAD(P) binding site [chemical binding]; other site 1031711007870 catalytic residues [active] 1031711007871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 1031711007872 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 1031711007873 potential frameshift: common BLAST hit: gi|330808748|ref|YP_004353210.1| hydrolase 1031711007874 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1031711007875 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1031711007876 active site 1031711007877 catalytic triad [active] 1031711007878 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1031711007879 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 1031711007880 S-adenosylmethionine binding site [chemical binding]; other site 1031711007881 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1031711007882 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1031711007883 active site 1031711007884 FMN binding site [chemical binding]; other site 1031711007885 substrate binding site [chemical binding]; other site 1031711007886 homotetramer interface [polypeptide binding]; other site 1031711007887 catalytic residue [active] 1031711007888 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1031711007889 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1031711007890 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1031711007891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711007892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711007893 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1031711007894 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 1031711007895 S-adenosylmethionine binding site [chemical binding]; other site 1031711007896 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 1031711007897 active site residue [active] 1031711007898 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1031711007899 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1031711007900 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1031711007901 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1031711007902 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1031711007903 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1031711007904 putative active site [active] 1031711007905 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1031711007906 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1031711007907 active site 1031711007908 substrate binding site [chemical binding]; other site 1031711007909 metal binding site [ion binding]; metal-binding site 1031711007910 Chain length determinant protein; Region: Wzz; cl15801 1031711007911 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1031711007912 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 1031711007913 Mg++ binding site [ion binding]; other site 1031711007914 putative catalytic motif [active] 1031711007915 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1031711007916 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1031711007917 Probable Catalytic site; other site 1031711007918 metal-binding site 1031711007919 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 1031711007920 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1031711007921 Ligand binding site; other site 1031711007922 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1031711007923 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1031711007924 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1031711007925 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1031711007926 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1031711007927 substrate binding site; other site 1031711007928 tetramer interface; other site 1031711007929 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1031711007930 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1031711007931 NADP binding site [chemical binding]; other site 1031711007932 active site 1031711007933 putative substrate binding site [chemical binding]; other site 1031711007934 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1031711007935 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1031711007936 NAD binding site [chemical binding]; other site 1031711007937 substrate binding site [chemical binding]; other site 1031711007938 homodimer interface [polypeptide binding]; other site 1031711007939 active site 1031711007940 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1031711007941 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1031711007942 active site 1031711007943 metal binding site [ion binding]; metal-binding site 1031711007944 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1031711007945 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1031711007946 putative acyl-acceptor binding pocket; other site 1031711007947 dihydroorotase; Provisional; Region: PRK07627 1031711007948 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 1031711007949 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 1031711007950 active site 1031711007951 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1031711007952 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1031711007953 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1031711007954 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1031711007955 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711007956 active site 1031711007957 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1031711007958 hypothetical protein; Validated; Region: PRK00228 1031711007959 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1031711007960 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 1031711007961 RNA binding surface [nucleotide binding]; other site 1031711007962 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1031711007963 active site 1031711007964 uracil binding [chemical binding]; other site 1031711007965 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1031711007966 DNA photolyase; Region: DNA_photolyase; pfam00875 1031711007967 Hpt domain; Region: Hpt; pfam01627 1031711007968 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 1031711007969 putative binding surface; other site 1031711007970 active site 1031711007971 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 1031711007972 putative binding surface; other site 1031711007973 active site 1031711007974 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1031711007975 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 1031711007976 ATP binding site [chemical binding]; other site 1031711007977 Mg2+ binding site [ion binding]; other site 1031711007978 G-X-G motif; other site 1031711007979 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 1031711007980 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711007981 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 1031711007982 active site 1031711007983 phosphorylation site [posttranslational modification] 1031711007984 intermolecular recognition site; other site 1031711007985 dimerization interface [polypeptide binding]; other site 1031711007986 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1031711007987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1031711007988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711007989 dimer interface [polypeptide binding]; other site 1031711007990 putative CheW interface [polypeptide binding]; other site 1031711007991 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; cd00588 1031711007992 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711007993 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 1031711007994 active site 1031711007995 phosphorylation site [posttranslational modification] 1031711007996 intermolecular recognition site; other site 1031711007997 dimerization interface [polypeptide binding]; other site 1031711007998 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711007999 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 1031711008000 active site 1031711008001 phosphorylation site [posttranslational modification] 1031711008002 intermolecular recognition site; other site 1031711008003 dimerization interface [polypeptide binding]; other site 1031711008004 Rubredoxin [Energy production and conversion]; Region: COG1773 1031711008005 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 1031711008006 iron binding site [ion binding]; other site 1031711008007 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1031711008008 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 1031711008009 inhibitor-cofactor binding pocket; inhibition site 1031711008010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711008011 catalytic residue [active] 1031711008012 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1031711008013 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1031711008014 Repair protein; Region: Repair_PSII; pfam04536 1031711008015 Predicted membrane protein [Function unknown]; Region: COG3762 1031711008016 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1031711008017 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1031711008018 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1031711008019 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1031711008020 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1031711008021 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1031711008022 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711008023 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1031711008024 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 1031711008025 active site 1031711008026 phosphorylation site [posttranslational modification] 1031711008027 intermolecular recognition site; other site 1031711008028 dimerization interface [polypeptide binding]; other site 1031711008029 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1031711008030 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 1031711008031 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1031711008032 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1031711008033 ATP binding site [chemical binding]; other site 1031711008034 Walker A motif; other site 1031711008035 hexamer interface [polypeptide binding]; other site 1031711008036 Walker B motif; other site 1031711008037 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1031711008038 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711008039 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1031711008040 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711008041 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1031711008042 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1031711008043 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1031711008044 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1031711008045 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1031711008046 Ligand binding site; other site 1031711008047 Putative Catalytic site; other site 1031711008048 DXD motif; other site 1031711008049 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711008050 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1031711008051 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1031711008052 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1031711008053 putative FMN binding site [chemical binding]; other site 1031711008054 NADPH bind site [chemical binding]; other site 1031711008055 Predicted membrane protein [Function unknown]; Region: COG2246 1031711008056 GtrA-like protein; Region: GtrA; pfam04138 1031711008057 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1031711008058 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 1031711008059 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1031711008060 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 1031711008061 ring oligomerisation interface [polypeptide binding]; other site 1031711008062 ATP/Mg binding site [chemical binding]; other site 1031711008063 stacking interactions; other site 1031711008064 hinge regions; other site 1031711008065 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 1031711008066 oligomerisation interface [polypeptide binding]; other site 1031711008067 mobile loop; other site 1031711008068 roof hairpin; other site 1031711008069 putative chaperone; Provisional; Region: PRK11678 1031711008070 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1031711008071 nucleotide binding site [chemical binding]; other site 1031711008072 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1031711008073 SBD interface [polypeptide binding]; other site 1031711008074 Transposase; Region: HTH_Tnp_1; pfam01527 1031711008075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1031711008076 HTH-like domain; Region: HTH_21; pfam13276 1031711008077 Integrase core domain; Region: rve; pfam00665 1031711008078 Integrase core domain; Region: rve_3; pfam13683 1031711008079 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1031711008080 similar to 5-truncated guanosine-3, 5-bisdiphosphate 3-pyrophosphohydrolase protein; RSPO_c02737 1031711008081 transposase/IS protein; Provisional; Region: PRK09183 1031711008082 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711008083 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 1031711008084 Walker A motif; other site 1031711008085 ATP binding site [chemical binding]; other site 1031711008086 Walker B motif; other site 1031711008087 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 1031711008088 DNA-binding interface [nucleotide binding]; DNA binding site 1031711008089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711008090 Integrase core domain; Region: rve; pfam00665 1031711008091 Inclusion body protein; Region: PixA; pfam12306 1031711008092 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1031711008093 ApbE family; Region: ApbE; pfam02424 1031711008094 FMN-binding domain; Region: FMN_bind; pfam04205 1031711008095 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1031711008096 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711008097 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711008098 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711008099 putative transposase OrfB; Reviewed; Region: PHA02517 1031711008100 HTH-like domain; Region: HTH_21; pfam13276 1031711008101 Integrase core domain; Region: rve; pfam00665 1031711008102 Integrase core domain; Region: rve_3; pfam13683 1031711008103 Transposase; Region: HTH_Tnp_1; cl17663 1031711008104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711008105 NAD(P) binding site [chemical binding]; other site 1031711008106 active site 1031711008107 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711008108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711008109 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711008110 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1031711008111 putative C-terminal domain interface [polypeptide binding]; other site 1031711008112 putative GSH binding site (G-site) [chemical binding]; other site 1031711008113 putative dimer interface [polypeptide binding]; other site 1031711008114 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1031711008115 dimer interface [polypeptide binding]; other site 1031711008116 N-terminal domain interface [polypeptide binding]; other site 1031711008117 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711008118 Cache domain; Region: Cache_1; pfam02743 1031711008119 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 1031711008120 dimerization interface [polypeptide binding]; other site 1031711008121 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1031711008122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711008123 dimer interface [polypeptide binding]; other site 1031711008124 putative CheW interface [polypeptide binding]; other site 1031711008125 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1031711008126 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1031711008127 substrate binding site [chemical binding]; other site 1031711008128 catalytic Zn binding site [ion binding]; other site 1031711008129 NAD binding site [chemical binding]; other site 1031711008130 structural Zn binding site [ion binding]; other site 1031711008131 dimer interface [polypeptide binding]; other site 1031711008132 S-formylglutathione hydrolase; Region: PLN02442 1031711008133 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1031711008134 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1031711008135 Paraquat-inducible protein A; Region: PqiA; pfam04403 1031711008136 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1031711008137 Paraquat-inducible protein A; Region: PqiA; pfam04403 1031711008138 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1031711008139 mce related protein; Region: MCE; pfam02470 1031711008140 mce related protein; Region: MCE; pfam02470 1031711008141 mce related protein; Region: MCE; pfam02470 1031711008142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1031711008143 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1031711008144 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 1031711008145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711008146 DNA-binding site [nucleotide binding]; DNA binding site 1031711008147 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1031711008148 hydrophobic ligand binding site; other site 1031711008149 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 1031711008150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711008151 homodimer interface [polypeptide binding]; other site 1031711008152 catalytic residue [active] 1031711008153 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1031711008154 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1031711008155 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1031711008156 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1031711008157 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711008158 Zn2+ binding site [ion binding]; other site 1031711008159 Mg2+ binding site [ion binding]; other site 1031711008160 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711008161 MarR family; Region: MarR; pfam01047 1031711008162 hypothetical protein; Provisional; Region: PRK07538 1031711008163 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711008164 amidase; Provisional; Region: PRK07056 1031711008165 Amidase; Region: Amidase; cl11426 1031711008166 PAS domain S-box; Region: sensory_box; TIGR00229 1031711008167 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 1031711008168 putative active site [active] 1031711008169 heme pocket [chemical binding]; other site 1031711008170 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1031711008171 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1031711008172 PAS fold; Region: PAS; pfam00989 1031711008173 PAS domain; Region: PAS; smart00091 1031711008174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711008175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711008176 metal binding site [ion binding]; metal-binding site 1031711008177 active site 1031711008178 I-site; other site 1031711008179 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 1031711008180 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1031711008181 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 1031711008182 active site 1031711008183 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1031711008184 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1031711008185 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1031711008186 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 1031711008187 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1031711008188 Triacylglycerol lipase-like subfamily of the 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: Triacylglycerol_lipase_like; cd01847 1031711008189 active site 1031711008190 catalytic triad [active] 1031711008191 oxyanion hole [active] 1031711008192 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1031711008193 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1031711008194 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1031711008195 ATP-grasp domain; Region: ATP-grasp; pfam02222 1031711008196 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1031711008197 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1031711008198 ATP binding site [chemical binding]; other site 1031711008199 active site 1031711008200 substrate binding site [chemical binding]; other site 1031711008201 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1031711008202 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 1031711008203 intersubunit interface [polypeptide binding]; other site 1031711008204 active site 1031711008205 zinc binding site [ion binding]; other site 1031711008206 Na+ binding site [ion binding]; other site 1031711008207 pyruvate kinase; Provisional; Region: PRK05826 1031711008208 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 1031711008209 domain interfaces; other site 1031711008210 active site 1031711008211 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1031711008212 Phosphoglycerate kinase; Region: PGK; pfam00162 1031711008213 substrate binding site [chemical binding]; other site 1031711008214 hinge regions; other site 1031711008215 ADP binding site [chemical binding]; other site 1031711008216 catalytic site [active] 1031711008217 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1031711008218 Predicted membrane protein [Function unknown]; Region: COG4392 1031711008219 AzlC protein; Region: AzlC; pfam03591 1031711008220 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1031711008221 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1031711008222 homodimer interface [polypeptide binding]; other site 1031711008223 substrate-cofactor binding pocket; other site 1031711008224 catalytic residue [active] 1031711008225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1031711008226 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1031711008227 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1031711008228 putative active site [active] 1031711008229 SnoaL-like domain; Region: SnoaL_3; pfam13474 1031711008230 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1031711008231 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1031711008232 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1031711008233 Peptidase family M48; Region: Peptidase_M48; pfam01435 1031711008234 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 1031711008235 trimer interface [polypeptide binding]; other site 1031711008236 dimer interface [polypeptide binding]; other site 1031711008237 putative active site [active] 1031711008238 integrase; Provisional; Region: int; PHA02601 1031711008239 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 1031711008240 Transposase; Region: HTH_Tnp_1; cl17663 1031711008241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711008242 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711008243 Integrase core domain; Region: rve; pfam00665 1031711008244 Integrase core domain; Region: rve_3; pfam13683 1031711008245 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 1031711008246 Transposase; Region: HTH_Tnp_1; pfam01527 1031711008247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1031711008248 HTH-like domain; Region: HTH_21; pfam13276 1031711008249 Integrase core domain; Region: rve; pfam00665 1031711008250 Integrase core domain; Region: rve_3; pfam13683 1031711008251 Predicted helicase [General function prediction only]; Region: COG4889 1031711008252 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 1031711008253 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 1031711008254 ATP binding site [chemical binding]; other site 1031711008255 putative Mg++ binding site [ion binding]; other site 1031711008256 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1031711008257 ATP-binding site [chemical binding]; other site 1031711008258 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711008259 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 1031711008260 non-specific DNA binding site [nucleotide binding]; other site 1031711008261 salt bridge; other site 1031711008262 sequence-specific DNA binding site [nucleotide binding]; other site 1031711008263 Domain of unknown function (DUF955); Region: DUF955; cl01076 1031711008264 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1031711008265 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1031711008266 catalytic residues [active] 1031711008267 catalytic nucleophile [active] 1031711008268 Presynaptic Site I dimer interface [polypeptide binding]; other site 1031711008269 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1031711008270 Synaptic Flat tetramer interface [polypeptide binding]; other site 1031711008271 Synaptic Site I dimer interface [polypeptide binding]; other site 1031711008272 DNA binding site [nucleotide binding] 1031711008273 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 1031711008274 DNA-binding interface [nucleotide binding]; DNA binding site 1031711008275 Uncharacterized conserved protein [Function unknown]; Region: COG4983 1031711008276 AAA domain; Region: AAA_25; pfam13481 1031711008277 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 1031711008278 Walker A motif; other site 1031711008279 ATP binding site [chemical binding]; other site 1031711008280 Walker B motif; other site 1031711008281 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711008282 Integrase core domain; Region: rve; pfam00665 1031711008283 Integrase core domain; Region: rve_3; pfam13683 1031711008284 Transposase; Region: HTH_Tnp_1; cl17663 1031711008285 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711008286 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1031711008287 O-Antigen ligase; Region: Wzy_C; pfam04932 1031711008288 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 1031711008289 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1031711008290 Pilin (bacterial filament); Region: Pilin; pfam00114 1031711008291 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1031711008292 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1031711008293 Pilin (bacterial filament); Region: Pilin; pfam00114 1031711008294 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1031711008295 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1031711008296 CoA binding domain; Region: CoA_binding; smart00881 1031711008297 CoA-ligase; Region: Ligase_CoA; pfam00549 1031711008298 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1031711008299 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1031711008300 CoA-ligase; Region: Ligase_CoA; pfam00549 1031711008301 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1031711008302 RecX family; Region: RecX; cl00936 1031711008303 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 1031711008304 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1031711008305 hexamer interface [polypeptide binding]; other site 1031711008306 Walker A motif; other site 1031711008307 ATP binding site [chemical binding]; other site 1031711008308 Walker B motif; other site 1031711008309 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711008310 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 1031711008311 active site 1031711008312 phosphorylation site [posttranslational modification] 1031711008313 intermolecular recognition site; other site 1031711008314 dimerization interface [polypeptide binding]; other site 1031711008315 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 1031711008316 DNA binding site [nucleotide binding] 1031711008317 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1031711008318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711008319 HAMP domain; Region: HAMP; pfam00672 1031711008320 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 1031711008321 dimer interface [polypeptide binding]; other site 1031711008322 phosphorylation site [posttranslational modification] 1031711008323 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 1031711008324 ATP binding site [chemical binding]; other site 1031711008325 Mg2+ binding site [ion binding]; other site 1031711008326 G-X-G motif; other site 1031711008327 Predicted membrane protein [Function unknown]; Region: COG4327 1031711008328 potential frameshift: common BLAST hit: gi|300705091|ref|YP_003746694.1| shikimate transporter 1031711008329 metabolite-proton symporter; Region: 2A0106; TIGR00883 1031711008330 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 1031711008331 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 1031711008332 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 1031711008333 Int/Topo IB signature motif; other site 1031711008334 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 1031711008335 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1031711008336 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1031711008337 hypothetical protein; Provisional; Region: PRK07236 1031711008338 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711008339 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 1031711008340 active site 1031711008341 phosphorylation site [posttranslational modification] 1031711008342 intermolecular recognition site; other site 1031711008343 dimerization interface [polypeptide binding]; other site 1031711008344 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 1031711008345 DNA binding site [nucleotide binding] 1031711008346 LysR family transcriptional regulator; Provisional; Region: PRK14997 1031711008347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711008348 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711008349 putative effector binding pocket; other site 1031711008350 dimerization interface [polypeptide binding]; other site 1031711008351 Pirin-related protein [General function prediction only]; Region: COG1741 1031711008352 Pirin; Region: Pirin; pfam02678 1031711008353 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1031711008354 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1031711008355 serine/threonine protein kinase; Provisional; Region: PRK11768 1031711008356 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 1031711008357 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 1031711008358 ATP binding site [chemical binding]; other site 1031711008359 Mg++ binding site [ion binding]; other site 1031711008360 motif III; other site 1031711008361 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 1031711008362 nucleotide binding region [chemical binding]; other site 1031711008363 ATP-binding site [chemical binding]; other site 1031711008364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711008365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711008366 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1031711008367 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711008368 active site 1031711008369 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1031711008370 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1031711008371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711008372 NAD(P) binding site [chemical binding]; other site 1031711008373 active site 1031711008374 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1031711008375 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1031711008376 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711008377 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1031711008378 acyl-activating enzyme (AAE) consensus motif; other site 1031711008379 putative AMP binding site [chemical binding]; other site 1031711008380 putative active site [active] 1031711008381 putative CoA binding site [chemical binding]; other site 1031711008382 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 1031711008383 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1031711008384 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1031711008385 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1031711008386 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1031711008387 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 1031711008388 FeS/SAM binding site; other site 1031711008389 TRAM domain; Region: TRAM; pfam01938 1031711008390 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1031711008391 PhoH-like protein; Region: PhoH; pfam02562 1031711008392 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 1031711008393 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1031711008394 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 1031711008395 Transporter associated domain; Region: CorC_HlyC; smart01091 1031711008396 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1031711008397 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1031711008398 putative active site [active] 1031711008399 catalytic triad [active] 1031711008400 putative dimer interface [polypeptide binding]; other site 1031711008401 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 1031711008402 dimer interface [polypeptide binding]; other site 1031711008403 motif 1; other site 1031711008404 active site 1031711008405 motif 2; other site 1031711008406 motif 3; other site 1031711008407 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1031711008408 DALR anticodon binding domain; Region: DALR_1; pfam05746 1031711008409 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1031711008410 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 1031711008411 active site 1031711008412 motif I; other site 1031711008413 motif II; other site 1031711008414 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1031711008415 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1031711008416 putative acyl-acceptor binding pocket; other site 1031711008417 Protein of unknown function DUF45; Region: DUF45; pfam01863 1031711008418 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711008419 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1031711008420 dimer interface [polypeptide binding]; other site 1031711008421 active site 1031711008422 metal binding site [ion binding]; metal-binding site 1031711008423 glutathione binding site [chemical binding]; other site 1031711008424 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1031711008425 EamA-like transporter family; Region: EamA; pfam00892 1031711008426 EamA-like transporter family; Region: EamA; pfam00892 1031711008427 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1031711008428 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1031711008429 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 1031711008430 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1031711008431 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1031711008432 SurA N-terminal domain; Region: SurA_N; pfam09312 1031711008433 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1031711008434 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1031711008435 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1031711008436 OstA-like protein; Region: OstA; cl00844 1031711008437 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1031711008438 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1031711008439 Phosphotransferase enzyme family; Region: APH; pfam01636 1031711008440 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1031711008441 Predicted membrane protein [Function unknown]; Region: COG4392 1031711008442 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 1031711008443 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1031711008444 Substrate binding site; other site 1031711008445 metal-binding site 1031711008446 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1031711008447 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1031711008448 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1031711008449 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711008450 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711008451 metal binding site [ion binding]; metal-binding site 1031711008452 active site 1031711008453 I-site; other site 1031711008454 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 1031711008455 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1031711008456 proline aminopeptidase P II; Provisional; Region: PRK10879 1031711008457 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1031711008458 active site 1031711008459 hypothetical protein; Provisional; Region: PRK06996 1031711008460 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711008461 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1031711008462 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1031711008463 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1031711008464 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 1031711008465 FMN binding site [chemical binding]; other site 1031711008466 active site 1031711008467 catalytic residues [active] 1031711008468 substrate binding site [chemical binding]; other site 1031711008469 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711008470 catalytic site [active] 1031711008471 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1031711008472 DNA-binding protein Fis; Provisional; Region: PRK01905 1031711008473 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1031711008474 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 1031711008475 purine monophosphate binding site [chemical binding]; other site 1031711008476 dimer interface [polypeptide binding]; other site 1031711008477 putative catalytic residues [active] 1031711008478 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1031711008479 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1031711008480 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 1031711008481 active site 1031711008482 putative DNA-binding cleft [nucleotide binding]; other site 1031711008483 dimer interface [polypeptide binding]; other site 1031711008484 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1031711008485 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1031711008486 putative active site [active] 1031711008487 catalytic site [active] 1031711008488 putative metal binding site [ion binding]; other site 1031711008489 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1031711008490 RuvA N terminal domain; Region: RuvA_N; pfam01330 1031711008491 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1031711008492 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1031711008493 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 1031711008494 Walker A motif; other site 1031711008495 ATP binding site [chemical binding]; other site 1031711008496 Walker B motif; other site 1031711008497 arginine finger; other site 1031711008498 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1031711008499 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1031711008500 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 1031711008501 catalytic core [active] 1031711008502 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1031711008503 substrate binding site [chemical binding]; other site 1031711008504 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 1031711008505 putative active site [active] 1031711008506 dimerization interface [polypeptide binding]; other site 1031711008507 putative tRNAtyr binding site [nucleotide binding]; other site 1031711008508 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1031711008509 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1031711008510 active site 1031711008511 HIGH motif; other site 1031711008512 dimer interface [polypeptide binding]; other site 1031711008513 KMSKS motif; other site 1031711008514 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 1031711008515 RNA binding surface [nucleotide binding]; other site 1031711008516 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1031711008517 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1031711008518 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1031711008519 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1031711008520 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1031711008521 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 1031711008522 23S rRNA interface [nucleotide binding]; other site 1031711008523 L3 interface [polypeptide binding]; other site 1031711008524 OsmC-like protein; Region: OsmC; cl00767 1031711008525 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1031711008526 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1031711008527 active site 1031711008528 substrate binding pocket [chemical binding]; other site 1031711008529 dimer interface [polypeptide binding]; other site 1031711008530 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1031711008531 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1031711008532 MOFRL family; Region: MOFRL; pfam05161 1031711008533 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1031711008534 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1031711008535 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1031711008536 putative active site [active] 1031711008537 putative dimer interface [polypeptide binding]; other site 1031711008538 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1031711008539 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1031711008540 Walker A/P-loop; other site 1031711008541 ATP binding site [chemical binding]; other site 1031711008542 Q-loop/lid; other site 1031711008543 ABC transporter signature motif; other site 1031711008544 Walker B; other site 1031711008545 D-loop; other site 1031711008546 H-loop/switch region; other site 1031711008547 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1031711008548 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 1031711008549 dimer interface [polypeptide binding]; other site 1031711008550 conserved gate region; other site 1031711008551 putative PBP binding loops; other site 1031711008552 ABC-ATPase subunit interface; other site 1031711008553 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1031711008554 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 1031711008555 dimer interface [polypeptide binding]; other site 1031711008556 conserved gate region; other site 1031711008557 putative PBP binding loops; other site 1031711008558 ABC-ATPase subunit interface; other site 1031711008559 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 1031711008560 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711008561 substrate binding pocket [chemical binding]; other site 1031711008562 membrane-bound complex binding site; other site 1031711008563 hinge residues; other site 1031711008564 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1031711008565 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1031711008566 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1031711008567 NAD(P) binding site [chemical binding]; other site 1031711008568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711008569 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 1031711008570 dimerization interface [polypeptide binding]; other site 1031711008571 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1031711008572 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1031711008573 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1031711008574 Walker A/P-loop; other site 1031711008575 ATP binding site [chemical binding]; other site 1031711008576 Q-loop/lid; other site 1031711008577 ABC transporter signature motif; other site 1031711008578 Walker B; other site 1031711008579 D-loop; other site 1031711008580 H-loop/switch region; other site 1031711008581 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1031711008582 enoyl-CoA hydratase; Provisional; Region: PRK06688 1031711008583 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 1031711008584 substrate binding site [chemical binding]; other site 1031711008585 oxyanion hole (OAH) forming residues; other site 1031711008586 trimer interface [polypeptide binding]; other site 1031711008587 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1031711008588 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 1031711008589 dimer interface [polypeptide binding]; other site 1031711008590 active site 1031711008591 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1031711008592 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1031711008593 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711008594 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1031711008595 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 1031711008596 substrate binding site [chemical binding]; other site 1031711008597 oxyanion hole (OAH) forming residues; other site 1031711008598 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1031711008599 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1031711008600 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711008601 active site 1031711008602 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1031711008603 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711008604 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711008605 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1031711008606 Coenzyme A transferase; Region: CoA_trans; smart00882 1031711008607 Coenzyme A transferase; Region: CoA_trans; cl17247 1031711008608 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1031711008609 putative active site [active] 1031711008610 catalytic site [active] 1031711008611 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1031711008612 PLD-like domain; Region: PLDc_2; pfam13091 1031711008613 putative active site [active] 1031711008614 catalytic site [active] 1031711008615 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1031711008616 putative catalytic site [active] 1031711008617 putative metal binding site [ion binding]; other site 1031711008618 putative phosphate binding site [ion binding]; other site 1031711008619 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_7; cd04664 1031711008620 nudix motif; other site 1031711008621 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1031711008622 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 1031711008623 dimer interface [polypeptide binding]; other site 1031711008624 anticodon binding site; other site 1031711008625 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 1031711008626 homodimer interface [polypeptide binding]; other site 1031711008627 motif 1; other site 1031711008628 active site 1031711008629 motif 2; other site 1031711008630 GAD domain; Region: GAD; pfam02938 1031711008631 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 1031711008632 motif 3; other site 1031711008633 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1031711008634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2331 1031711008635 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 1031711008636 Na binding site [ion binding]; other site 1031711008637 putative glycosylation site [posttranslational modification]; other site 1031711008638 putative glycosylation site [posttranslational modification]; other site 1031711008639 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 1031711008640 S-adenosylmethionine binding site [chemical binding]; other site 1031711008641 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 1031711008642 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1031711008643 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1031711008644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1031711008645 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1031711008646 Tim44-like domain; Region: Tim44; cl09208 1031711008647 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1031711008648 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1031711008649 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 1031711008650 S-adenosylmethionine binding site [chemical binding]; other site 1031711008651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1031711008652 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1031711008653 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1031711008654 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1031711008655 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1031711008656 HIT family signature motif; other site 1031711008657 catalytic residue [active] 1031711008658 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1031711008659 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711008660 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711008661 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711008662 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1031711008663 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1031711008664 Cysteine-rich domain; Region: CCG; pfam02754 1031711008665 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1031711008666 Predicted membrane protein [Function unknown]; Region: COG1238 1031711008667 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1031711008668 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1031711008669 Inward rectifier potassium channel; Region: IRK; pfam01007 1031711008670 threonine dehydratase; Reviewed; Region: PRK09224 1031711008671 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 1031711008672 tetramer interface [polypeptide binding]; other site 1031711008673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711008674 catalytic residue [active] 1031711008675 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1031711008676 putative Ile/Val binding site [chemical binding]; other site 1031711008677 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1031711008678 putative Ile/Val binding site [chemical binding]; other site 1031711008679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1031711008680 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1031711008681 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1031711008682 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_C39G; cd02423 1031711008683 putative active site [active] 1031711008684 potential frameshift: common BLAST hit: gi|241661952|ref|YP_002980312.1| glycine-rich signal peptide protein 1031711008685 AMP-binding domain protein; Validated; Region: PRK08315 1031711008686 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711008687 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1031711008688 acyl-activating enzyme (AAE) consensus motif; other site 1031711008689 putative AMP binding site [chemical binding]; other site 1031711008690 putative active site [active] 1031711008691 putative CoA binding site [chemical binding]; other site 1031711008692 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1031711008693 ATP-binding site [chemical binding]; other site 1031711008694 Gluconate-6-phosphate binding site [chemical binding]; other site 1031711008695 Shikimate kinase; Region: SKI; pfam01202 1031711008696 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711008697 Predicted transporter component [General function prediction only]; Region: COG2391 1031711008698 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1031711008699 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1031711008700 Ligand binding site; other site 1031711008701 Putative Catalytic site; other site 1031711008702 DXD motif; other site 1031711008703 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1031711008704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711008705 NAD(P) binding site [chemical binding]; other site 1031711008706 active site 1031711008707 acyl carrier protein; Provisional; Region: PRK09184 1031711008708 Predicted membrane protein [Function unknown]; Region: COG4648 1031711008709 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1031711008710 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711008711 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711008712 acyl-activating enzyme (AAE) consensus motif; other site 1031711008713 AMP binding site [chemical binding]; other site 1031711008714 active site 1031711008715 acyl-activating enzyme (AAE) consensus motif; other site 1031711008716 CoA binding site [chemical binding]; other site 1031711008717 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 1031711008718 active site 2 [active] 1031711008719 dimer interface [polypeptide binding]; other site 1031711008720 active site 1 [active] 1031711008721 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1031711008722 putative acyl-acceptor binding pocket; other site 1031711008723 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1031711008724 Predicted exporter [General function prediction only]; Region: COG4258 1031711008725 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1031711008726 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1031711008727 NodB motif; other site 1031711008728 active site 1031711008729 catalytic site [active] 1031711008730 metal binding site [ion binding]; metal-binding site 1031711008731 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1031711008732 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 1031711008733 dimer interface [polypeptide binding]; other site 1031711008734 active site 1031711008735 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1031711008736 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1031711008737 putative active site 1 [active] 1031711008738 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 1031711008739 hydrophobic ligand binding site; other site 1031711008740 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1031711008741 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 1031711008742 tetramer interface [polypeptide binding]; other site 1031711008743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711008744 catalytic residue [active] 1031711008745 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1031711008746 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1031711008747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711008748 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711008749 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1031711008750 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 1031711008751 dimer interface [polypeptide binding]; other site 1031711008752 ssDNA binding site [nucleotide binding]; other site 1031711008753 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1031711008754 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 1031711008755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711008756 putative substrate translocation pore; other site 1031711008757 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1031711008758 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1031711008759 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1031711008760 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1031711008761 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 1031711008762 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1031711008763 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1031711008764 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1031711008765 PhoU domain; Region: PhoU; pfam01895 1031711008766 PhoU domain; Region: PhoU; pfam01895 1031711008767 potential frameshift: common BLAST hit: gi|241661919|ref|YP_002980279.1| Lysine exporter protein LysE/YggA 1031711008768 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711008769 LysE type translocator; Region: LysE; cl00565 1031711008770 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711008771 active site 1031711008772 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1031711008773 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1031711008774 conserved cys residue [active] 1031711008775 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1031711008776 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1031711008777 putative cation:proton antiport protein; Provisional; Region: PRK10669 1031711008778 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1031711008779 TrkA-N domain; Region: TrkA_N; pfam02254 1031711008780 TrkA-C domain; Region: TrkA_C; pfam02080 1031711008781 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1031711008782 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1031711008783 putative active site [active] 1031711008784 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1031711008785 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1031711008786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1031711008787 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1031711008788 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1031711008789 OstA-like protein; Region: OstA; pfam03968 1031711008790 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1031711008791 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1031711008792 Walker A/P-loop; other site 1031711008793 ATP binding site [chemical binding]; other site 1031711008794 Q-loop/lid; other site 1031711008795 ABC transporter signature motif; other site 1031711008796 Walker B; other site 1031711008797 D-loop; other site 1031711008798 H-loop/switch region; other site 1031711008799 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1031711008800 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1031711008801 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1031711008802 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1031711008803 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 1031711008804 30S subunit binding site; other site 1031711008805 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1031711008806 active site 1031711008807 phosphorylation site [posttranslational modification] 1031711008808 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1031711008809 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1031711008810 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1031711008811 Hpr binding site; other site 1031711008812 active site 1031711008813 homohexamer subunit interaction site [polypeptide binding]; other site 1031711008814 psiF repeat; Region: PsiF_repeat; pfam07769 1031711008815 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1031711008816 AAA domain; Region: AAA_18; pfam13238 1031711008817 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1031711008818 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1031711008819 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1031711008820 minor groove reading motif; other site 1031711008821 helix-hairpin-helix signature motif; other site 1031711008822 substrate binding pocket [chemical binding]; other site 1031711008823 active site 1031711008824 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 1031711008825 DNA binding and oxoG recognition site [nucleotide binding] 1031711008826 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1031711008827 G1 box; other site 1031711008828 GTP/Mg2+ binding site [chemical binding]; other site 1031711008829 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1031711008830 G2 box; other site 1031711008831 Switch I region; other site 1031711008832 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1031711008833 G3 box; other site 1031711008834 Switch II region; other site 1031711008835 GTP/Mg2+ binding site [chemical binding]; other site 1031711008836 G4 box; other site 1031711008837 G5 box; other site 1031711008838 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1031711008839 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1031711008840 DNA binding site [nucleotide binding] 1031711008841 catalytic residue [active] 1031711008842 H2TH interface [polypeptide binding]; other site 1031711008843 putative catalytic residues [active] 1031711008844 turnover-facilitating residue; other site 1031711008845 intercalation triad [nucleotide binding]; other site 1031711008846 8OG recognition residue [nucleotide binding]; other site 1031711008847 putative reading head residues; other site 1031711008848 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1031711008849 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1031711008850 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 1031711008851 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 1031711008852 binding surface 1031711008853 TPR motif; other site 1031711008854 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1031711008855 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 1031711008856 binding surface 1031711008857 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1031711008858 TPR motif; other site 1031711008859 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 1031711008860 binding surface 1031711008861 TPR motif; other site 1031711008862 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1031711008863 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 1031711008864 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1031711008865 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1031711008866 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1031711008867 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1031711008868 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1031711008869 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1031711008870 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711008871 active site 1031711008872 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1031711008873 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1031711008874 5S rRNA interface [nucleotide binding]; other site 1031711008875 CTC domain interface [polypeptide binding]; other site 1031711008876 L16 interface [polypeptide binding]; other site 1031711008877 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 1031711008878 putative active site [active] 1031711008879 catalytic residue [active] 1031711008880 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1031711008881 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1031711008882 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1031711008883 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1031711008884 active site 1031711008885 (T/H)XGH motif; other site 1031711008886 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1031711008887 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 1031711008888 S-adenosylmethionine binding site [chemical binding]; other site 1031711008889 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1031711008890 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1031711008891 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1031711008892 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1031711008893 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1031711008894 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1031711008895 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1031711008896 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 1031711008897 P loop; other site 1031711008898 GTP binding site [chemical binding]; other site 1031711008899 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1031711008900 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1031711008901 C-terminal domain interface [polypeptide binding]; other site 1031711008902 GSH binding site (G-site) [chemical binding]; other site 1031711008903 putative dimer interface [polypeptide binding]; other site 1031711008904 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1031711008905 dimer interface [polypeptide binding]; other site 1031711008906 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1031711008907 N-terminal domain interface [polypeptide binding]; other site 1031711008908 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 1031711008909 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1031711008910 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1031711008911 ANTAR domain; Region: ANTAR; pfam03861 1031711008912 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1031711008913 NMT1-like family; Region: NMT1_2; pfam13379 1031711008914 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1031711008915 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 1031711008916 dimer interface [polypeptide binding]; other site 1031711008917 conserved gate region; other site 1031711008918 putative PBP binding loops; other site 1031711008919 ABC-ATPase subunit interface; other site 1031711008920 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1031711008921 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1031711008922 Walker A/P-loop; other site 1031711008923 ATP binding site [chemical binding]; other site 1031711008924 Q-loop/lid; other site 1031711008925 ABC transporter signature motif; other site 1031711008926 Walker B; other site 1031711008927 D-loop; other site 1031711008928 H-loop/switch region; other site 1031711008929 glycosyl transferase family protein; Provisional; Region: PRK08136 1031711008930 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1031711008931 Pirin-related protein [General function prediction only]; Region: COG1741 1031711008932 Pirin; Region: Pirin; pfam02678 1031711008933 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1031711008934 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1031711008935 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 1031711008936 PAS domain; Region: PAS_9; pfam13426 1031711008937 putative active site [active] 1031711008938 heme pocket [chemical binding]; other site 1031711008939 PAS domain; Region: PAS_9; pfam13426 1031711008940 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 1031711008941 putative active site [active] 1031711008942 heme pocket [chemical binding]; other site 1031711008943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711008944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711008945 metal binding site [ion binding]; metal-binding site 1031711008946 active site 1031711008947 I-site; other site 1031711008948 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1031711008949 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1031711008950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711008951 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 1031711008952 DNA binding residues [nucleotide binding] 1031711008953 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1031711008954 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1031711008955 Cu(I) binding site [ion binding]; other site 1031711008956 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1031711008957 UbiA prenyltransferase family; Region: UbiA; pfam01040 1031711008958 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1031711008959 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1031711008960 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711008961 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1031711008962 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1031711008963 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1031711008964 Subunit III/VIIa interface [polypeptide binding]; other site 1031711008965 Phospholipid binding site [chemical binding]; other site 1031711008966 Subunit I/III interface [polypeptide binding]; other site 1031711008967 Subunit III/VIb interface [polypeptide binding]; other site 1031711008968 Subunit III/VIa interface; other site 1031711008969 Subunit III/Vb interface [polypeptide binding]; other site 1031711008970 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1031711008971 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1031711008972 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1031711008973 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1031711008974 Subunit I/III interface [polypeptide binding]; other site 1031711008975 D-pathway; other site 1031711008976 Subunit I/VIIc interface [polypeptide binding]; other site 1031711008977 Subunit I/IV interface [polypeptide binding]; other site 1031711008978 Subunit I/II interface [polypeptide binding]; other site 1031711008979 Low-spin heme (heme a) binding site [chemical binding]; other site 1031711008980 Subunit I/VIIa interface [polypeptide binding]; other site 1031711008981 Subunit I/VIa interface [polypeptide binding]; other site 1031711008982 Dimer interface; other site 1031711008983 Putative water exit pathway; other site 1031711008984 Binuclear center (heme a3/CuB) [ion binding]; other site 1031711008985 K-pathway; other site 1031711008986 Subunit I/Vb interface [polypeptide binding]; other site 1031711008987 Putative proton exit pathway; other site 1031711008988 Subunit I/VIb interface; other site 1031711008989 Subunit I/VIc interface [polypeptide binding]; other site 1031711008990 Electron transfer pathway; other site 1031711008991 Subunit I/VIIIb interface [polypeptide binding]; other site 1031711008992 Subunit I/VIIb interface [polypeptide binding]; other site 1031711008993 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1031711008994 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1031711008995 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1031711008996 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1031711008997 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1031711008998 Integral membrane protein [Function unknown]; Region: COG5488 1031711008999 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1031711009000 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 1031711009001 S-adenosylmethionine binding site [chemical binding]; other site 1031711009002 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1031711009003 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711009004 active site 1031711009005 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1031711009006 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1031711009007 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1031711009008 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1031711009009 preprotein translocase subunit SecB; Validated; Region: PRK05751 1031711009010 SecA binding site; other site 1031711009011 Preprotein binding site; other site 1031711009012 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1031711009013 GSH binding site [chemical binding]; other site 1031711009014 catalytic residues [active] 1031711009015 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 1031711009016 active site residue [active] 1031711009017 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 1031711009018 catalytic core [active] 1031711009019 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 1031711009020 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1031711009021 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1031711009022 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 1031711009023 protein binding site [polypeptide binding]; other site 1031711009024 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1031711009025 Catalytic dyad [active] 1031711009026 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1031711009027 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 1031711009028 ATP binding site [chemical binding]; other site 1031711009029 substrate interface [chemical binding]; other site 1031711009030 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1031711009031 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1031711009032 heme binding site [chemical binding]; other site 1031711009033 ferroxidase pore; other site 1031711009034 ferroxidase diiron center [ion binding]; other site 1031711009035 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1031711009036 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1031711009037 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1031711009038 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1031711009039 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1031711009040 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1031711009041 dimerization domain swap beta strand [polypeptide binding]; other site 1031711009042 regulatory protein interface [polypeptide binding]; other site 1031711009043 active site 1031711009044 regulatory phosphorylation site [posttranslational modification]; other site 1031711009045 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1031711009046 active pocket/dimerization site; other site 1031711009047 active site 1031711009048 phosphorylation site [posttranslational modification] 1031711009049 glutathione synthetase; Provisional; Region: PRK05246 1031711009050 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1031711009051 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1031711009052 Glutamate-cysteine ligase; Region: GshA; pfam08886 1031711009053 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1031711009054 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1031711009055 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1031711009056 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1031711009057 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1031711009058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1031711009059 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1031711009060 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1031711009061 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1031711009062 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1031711009063 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1031711009064 Polyphenol oxidase middle domain; Region: PPO1_DWL; pfam12142 1031711009065 Protein of unknown function (DUF_B2219); Region: PPO1_KFDV; pfam12143 1031711009066 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1031711009067 putative ADP-ribose binding site [chemical binding]; other site 1031711009068 putative active site [active] 1031711009069 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 1031711009070 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711009071 catalytic residues [active] 1031711009072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1031711009073 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 1031711009074 active site 1031711009075 phosphorylation site [posttranslational modification] 1031711009076 intermolecular recognition site; other site 1031711009077 dimerization interface [polypeptide binding]; other site 1031711009078 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 1031711009079 Walker A motif; other site 1031711009080 ATP binding site [chemical binding]; other site 1031711009081 Walker B motif; other site 1031711009082 arginine finger; other site 1031711009083 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711009084 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1031711009085 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 1031711009086 dimer interface [polypeptide binding]; other site 1031711009087 phosphorylation site [posttranslational modification] 1031711009088 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 1031711009089 ATP binding site [chemical binding]; other site 1031711009090 Mg2+ binding site [ion binding]; other site 1031711009091 G-X-G motif; other site 1031711009092 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1031711009093 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1031711009094 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 1031711009095 dimer interface [polypeptide binding]; other site 1031711009096 [2Fe-2S] cluster binding site [ion binding]; other site 1031711009097 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1031711009098 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1031711009099 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1031711009100 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1031711009101 hypothetical protein; Provisional; Region: PRK02047 1031711009102 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1031711009103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711009104 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1031711009105 dimerization interface [polypeptide binding]; other site 1031711009106 substrate binding pocket [chemical binding]; other site 1031711009107 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1031711009108 lipoate-protein ligase B; Provisional; Region: PRK14343 1031711009109 lipoyl synthase; Provisional; Region: PRK05481 1031711009110 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 1031711009111 FeS/SAM binding site; other site 1031711009112 Predicted secreted protein [Function unknown]; Region: COG5445 1031711009113 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1031711009114 Predicted integral membrane protein [Function unknown]; Region: COG5652 1031711009115 Protein of unknown function (DUF330); Region: DUF330; cl01135 1031711009116 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1031711009117 mce related protein; Region: MCE; pfam02470 1031711009118 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1031711009119 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1031711009120 Walker A/P-loop; other site 1031711009121 ATP binding site [chemical binding]; other site 1031711009122 Q-loop/lid; other site 1031711009123 ABC transporter signature motif; other site 1031711009124 Walker B; other site 1031711009125 D-loop; other site 1031711009126 H-loop/switch region; other site 1031711009127 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1031711009128 Permease; Region: Permease; pfam02405 1031711009129 biotin--protein ligase; Provisional; Region: PRK06955 1031711009130 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1031711009131 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1031711009132 pantothenate kinase; Reviewed; Region: PRK13328 1031711009133 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1031711009134 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1031711009135 active site 1031711009136 nucleotide binding site [chemical binding]; other site 1031711009137 HIGH motif; other site 1031711009138 KMSKS motif; other site 1031711009139 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1031711009140 dinuclear metal binding motif [ion binding]; other site 1031711009141 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1031711009142 catalytic residues [active] 1031711009143 dimer interface [polypeptide binding]; other site 1031711009144 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1031711009145 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1031711009146 active site 1031711009147 nucleophile elbow; other site 1031711009148 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1031711009149 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 1031711009150 substrate binding site [chemical binding]; other site 1031711009151 oxyanion hole (OAH) forming residues; other site 1031711009152 trimer interface [polypeptide binding]; other site 1031711009153 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; cl15762 1031711009154 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711009155 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1031711009156 putative ligand binding site [chemical binding]; other site 1031711009157 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 1031711009158 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711009159 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711009160 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711009161 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 1031711009162 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1031711009163 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1031711009164 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711009165 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711009166 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1031711009167 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1031711009168 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 1031711009169 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1031711009170 active site residue [active] 1031711009171 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1031711009172 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1031711009173 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 1031711009174 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1031711009175 substrate binding pocket [chemical binding]; other site 1031711009176 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1031711009177 B12 binding site [chemical binding]; other site 1031711009178 cobalt ligand [ion binding]; other site 1031711009179 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1031711009180 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711009181 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 1031711009182 active site 1031711009183 phosphorylation site [posttranslational modification] 1031711009184 intermolecular recognition site; other site 1031711009185 dimerization interface [polypeptide binding]; other site 1031711009186 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 1031711009187 DNA binding residues [nucleotide binding] 1031711009188 dimerization interface [polypeptide binding]; other site 1031711009189 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711009190 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 1031711009191 active site 1031711009192 phosphorylation site [posttranslational modification] 1031711009193 intermolecular recognition site; other site 1031711009194 dimerization interface [polypeptide binding]; other site 1031711009195 Predicted small secreted protein [Function unknown]; Region: COG5510 1031711009196 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 1031711009197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711009198 Histidine kinase; Region: HisKA_3; pfam07730 1031711009199 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 1031711009200 ATP binding site [chemical binding]; other site 1031711009201 Mg2+ binding site [ion binding]; other site 1031711009202 G-X-G motif; other site 1031711009203 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 1031711009204 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1031711009205 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1031711009206 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1031711009207 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1031711009208 active site 1031711009209 HIGH motif; other site 1031711009210 KMSK motif region; other site 1031711009211 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1031711009212 tRNA binding surface [nucleotide binding]; other site 1031711009213 anticodon binding site; other site 1031711009214 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1031711009215 Sporulation related domain; Region: SPOR; pfam05036 1031711009216 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1031711009217 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1031711009218 catalytic residues [active] 1031711009219 hinge region; other site 1031711009220 alpha helical domain; other site 1031711009221 short chain dehydrogenase; Provisional; Region: PRK07024 1031711009222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711009223 NAD(P) binding site [chemical binding]; other site 1031711009224 active site 1031711009225 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1031711009226 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 1031711009227 intersubunit interface [polypeptide binding]; other site 1031711009228 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1031711009229 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1031711009230 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1031711009231 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1031711009232 DNA binding residues [nucleotide binding] 1031711009233 putative dimer interface [polypeptide binding]; other site 1031711009234 isovaleryl-CoA dehydrogenase; Region: PLN02519 1031711009235 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1031711009236 substrate binding site [chemical binding]; other site 1031711009237 FAD binding site [chemical binding]; other site 1031711009238 catalytic base [active] 1031711009239 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1031711009240 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1031711009241 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_cladeA; cd00883 1031711009242 active site clefts [active] 1031711009243 zinc binding site [ion binding]; other site 1031711009244 dimer interface [polypeptide binding]; other site 1031711009245 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1031711009246 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 1031711009247 dimer interface [polypeptide binding]; other site 1031711009248 active site 1031711009249 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1031711009250 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1031711009251 NADP binding site [chemical binding]; other site 1031711009252 homodimer interface [polypeptide binding]; other site 1031711009253 active site 1031711009254 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711009255 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711009256 active site 1031711009257 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1031711009258 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1031711009259 putative catalytic residue [active] 1031711009260 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 1031711009261 active site 1031711009262 catalytic residue [active] 1031711009263 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1031711009264 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 1031711009265 motif II; other site 1031711009266 hypothetical protein; Provisional; Region: PRK01842 1031711009267 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1031711009268 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1031711009269 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1031711009270 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1031711009271 enoyl-CoA hydratase; Provisional; Region: PRK05995 1031711009272 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 1031711009273 substrate binding site [chemical binding]; other site 1031711009274 oxyanion hole (OAH) forming residues; other site 1031711009275 trimer interface [polypeptide binding]; other site 1031711009276 biotin synthase; Region: bioB; TIGR00433 1031711009277 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 1031711009278 FeS/SAM binding site; other site 1031711009279 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1031711009280 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1031711009281 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1031711009282 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1031711009283 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1031711009284 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 1031711009285 carboxyltransferase (CT) interaction site; other site 1031711009286 biotinylation site [posttranslational modification]; other site 1031711009287 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1031711009288 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1031711009289 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1031711009290 putative ligand binding site [chemical binding]; other site 1031711009291 NAD binding site [chemical binding]; other site 1031711009292 dimerization interface [polypeptide binding]; other site 1031711009293 catalytic site [active] 1031711009294 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1031711009295 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1031711009296 active site 1031711009297 catalytic residues [active] 1031711009298 metal binding site [ion binding]; metal-binding site 1031711009299 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 1031711009300 putative deacylase active site [active] 1031711009301 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1031711009302 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1031711009303 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711009304 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1031711009305 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711009306 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711009307 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1031711009308 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 1031711009309 FMN binding site [chemical binding]; other site 1031711009310 substrate binding site [chemical binding]; other site 1031711009311 putative catalytic residue [active] 1031711009312 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1031711009313 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1031711009314 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 1031711009315 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711009316 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 1031711009317 sequence-specific DNA binding site [nucleotide binding]; other site 1031711009318 salt bridge; other site 1031711009319 Cupin domain; Region: Cupin_2; pfam07883 1031711009320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711009321 Coenzyme A binding pocket [chemical binding]; other site 1031711009322 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1031711009323 similar to 5-truncated hemolysin-type calcium-binding protein; RSPO_c03160 1031711009324 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 1031711009325 active site 1031711009326 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1031711009327 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1031711009328 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1031711009329 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 1031711009330 B12 binding site [chemical binding]; other site 1031711009331 cobalt ligand [ion binding]; other site 1031711009332 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 1031711009333 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 1031711009334 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 1031711009335 putative active site [active] 1031711009336 putative substrate binding site [chemical binding]; other site 1031711009337 putative coenzyme B12 binding site [chemical binding]; other site 1031711009338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1031711009339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711009340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711009341 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711009342 Predicted membrane protein [Function unknown]; Region: COG4292 1031711009343 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1031711009344 Chromate transporter; Region: Chromate_transp; pfam02417 1031711009345 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1031711009346 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 1031711009347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711009348 homodimer interface [polypeptide binding]; other site 1031711009349 catalytic residue [active] 1031711009350 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 1031711009351 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 1031711009352 putative active site [active] 1031711009353 adenylation catalytic residue [active] 1031711009354 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1031711009355 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1031711009356 hypothetical protein; Reviewed; Region: PRK09588 1031711009357 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1031711009358 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 1031711009359 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 1031711009360 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 1031711009361 Walker A motif; other site 1031711009362 ATP binding site [chemical binding]; other site 1031711009363 Walker B motif; other site 1031711009364 arginine finger; other site 1031711009365 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1031711009366 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1031711009367 active site 1031711009368 nucleophile elbow; other site 1031711009369 Cupin domain; Region: Cupin_2; cl17218 1031711009370 Acylphosphatase; Region: Acylphosphatase; pfam00708 1031711009371 Double zinc ribbon; Region: DZR; pfam12773 1031711009372 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1031711009373 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 1031711009374 glutaminase active site [active] 1031711009375 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 1031711009376 dimer interface [polypeptide binding]; other site 1031711009377 active site 1031711009378 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 1031711009379 dimer interface [polypeptide binding]; other site 1031711009380 active site 1031711009381 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1031711009382 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1031711009383 Substrate binding site; other site 1031711009384 Mg++ binding site; other site 1031711009385 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 1031711009386 active site 1031711009387 substrate binding site [chemical binding]; other site 1031711009388 CoA binding site [chemical binding]; other site 1031711009389 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1031711009390 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1031711009391 Ligand Binding Site [chemical binding]; other site 1031711009392 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 1031711009393 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711009394 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1031711009395 hypothetical protein; Validated; Region: PRK08238 1031711009396 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1031711009397 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1031711009398 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711009399 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711009400 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1031711009401 short chain dehydrogenase; Provisional; Region: PRK07102 1031711009402 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1031711009403 NAD(P) binding site [chemical binding]; other site 1031711009404 active site 1031711009405 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1031711009406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711009407 NAD(P) binding site [chemical binding]; other site 1031711009408 active site 1031711009409 hypothetical protein; Provisional; Region: PRK07233 1031711009410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1031711009411 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 1031711009412 Predicted membrane protein [Function unknown]; Region: COG2246 1031711009413 GtrA-like protein; Region: GtrA; pfam04138 1031711009414 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711009415 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1031711009416 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1031711009417 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1031711009418 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1031711009419 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1031711009420 Walker A/P-loop; other site 1031711009421 ATP binding site [chemical binding]; other site 1031711009422 Q-loop/lid; other site 1031711009423 ABC transporter signature motif; other site 1031711009424 Walker B; other site 1031711009425 D-loop; other site 1031711009426 H-loop/switch region; other site 1031711009427 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1031711009428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711009429 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711009430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711009431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711009432 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1031711009433 aldehyde dehydrogenase family 7 member; Region: PLN02315 1031711009434 tetrameric interface [polypeptide binding]; other site 1031711009435 NAD binding site [chemical binding]; other site 1031711009436 catalytic residues [active] 1031711009437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711009438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711009439 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 1031711009440 dimerization interface [polypeptide binding]; other site 1031711009441 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 1031711009442 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 1031711009443 inhibitor-cofactor binding pocket; inhibition site 1031711009444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711009445 catalytic residue [active] 1031711009446 Arginase family; Region: Arginase; cd09989 1031711009447 active site 1031711009448 Mn binding site [ion binding]; other site 1031711009449 oligomer interface [polypeptide binding]; other site 1031711009450 Dihydroneopterin aldolase; Region: FolB; smart00905 1031711009451 active site 1031711009452 short chain dehydrogenase; Provisional; Region: PRK09134 1031711009453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711009454 NAD(P) binding site [chemical binding]; other site 1031711009455 active site 1031711009456 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1031711009457 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1031711009458 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 1031711009459 putative substrate translocation pore; other site 1031711009460 Peptidase family M48; Region: Peptidase_M48; cl12018 1031711009461 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1031711009462 EamA-like transporter family; Region: EamA; pfam00892 1031711009463 Nitroreductase-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, nitrofurans and...; Region: Nitroreductase_2; cd02138 1031711009464 putative FMN binding site [chemical binding]; other site 1031711009465 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711009466 MarR family; Region: MarR; pfam01047 1031711009467 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1031711009468 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 1031711009469 putative active site [active] 1031711009470 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1031711009471 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; cd02106 1031711009472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711009473 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711009474 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1031711009475 putative substrate binding pocket [chemical binding]; other site 1031711009476 putative dimerization interface [polypeptide binding]; other site 1031711009477 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1031711009478 putative hydrophobic ligand binding site [chemical binding]; other site 1031711009479 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1031711009480 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1031711009481 Predicted membrane protein [Function unknown]; Region: COG4682 1031711009482 yiaA/B two helix domain; Region: YiaAB; pfam05360 1031711009483 yiaA/B two helix domain; Region: YiaAB; pfam05360 1031711009484 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1031711009485 putative active site [active] 1031711009486 putative catalytic site [active] 1031711009487 putative DNA binding site [nucleotide binding]; other site 1031711009488 putative phosphate binding site [ion binding]; other site 1031711009489 metal binding site A [ion binding]; metal-binding site 1031711009490 putative AP binding site [nucleotide binding]; other site 1031711009491 putative metal binding site B [ion binding]; other site 1031711009492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711009493 active site 1031711009494 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1031711009495 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1031711009496 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1031711009497 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1031711009498 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1031711009499 putative acyl-acceptor binding pocket; other site 1031711009500 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1031711009501 putative acyl-acceptor binding pocket; other site 1031711009502 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1031711009503 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1031711009504 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1031711009505 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1031711009506 Uncharacterized conserved protein [Function unknown]; Region: COG4274 1031711009507 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711009508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711009509 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1031711009510 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1031711009511 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1031711009512 active site 1031711009513 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1031711009514 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1031711009515 HPP family; Region: HPP; pfam04982 1031711009516 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 1031711009517 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1031711009518 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711009519 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1031711009520 C-terminal domain interface [polypeptide binding]; other site 1031711009521 GSH binding site (G-site) [chemical binding]; other site 1031711009522 dimer interface [polypeptide binding]; other site 1031711009523 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1031711009524 dimer interface [polypeptide binding]; other site 1031711009525 N-terminal domain interface [polypeptide binding]; other site 1031711009526 substrate binding pocket (H-site) [chemical binding]; other site 1031711009527 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1031711009528 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 1031711009529 putative DNA binding site [nucleotide binding]; other site 1031711009530 putative Zn2+ binding site [ion binding]; other site 1031711009531 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711009532 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1031711009533 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 1031711009534 Predicted transcriptional regulator [Transcription]; Region: COG2944 1031711009535 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 1031711009536 non-specific DNA binding site [nucleotide binding]; other site 1031711009537 salt bridge; other site 1031711009538 sequence-specific DNA binding site [nucleotide binding]; other site 1031711009539 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1031711009540 choline dehydrogenase; Validated; Region: PRK02106 1031711009541 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1031711009542 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1031711009543 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 1031711009544 substrate binding pocket [chemical binding]; other site 1031711009545 membrane-bound complex binding site; other site 1031711009546 hinge residues; other site 1031711009547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711009548 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711009549 active site 1031711009550 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1031711009551 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1031711009552 Coenzyme A binding pocket [chemical binding]; other site 1031711009553 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1031711009554 Phage Tail Collar Domain; Region: Collar; pfam07484 1031711009555 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1031711009556 Phage Tail Collar Domain; Region: Collar; pfam07484 1031711009557 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1031711009558 Phage Tail Collar Domain; Region: Collar; pfam07484 1031711009559 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1031711009560 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1031711009561 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 1031711009562 FMN binding site [chemical binding]; other site 1031711009563 substrate binding site [chemical binding]; other site 1031711009564 putative catalytic residue [active] 1031711009565 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1031711009566 ThiC-associated domain; Region: ThiC-associated; pfam13667 1031711009567 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1031711009568 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1031711009569 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1031711009570 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1031711009571 thiS-thiF/thiG interaction site; other site 1031711009572 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1031711009573 ThiS interaction site; other site 1031711009574 putative active site [active] 1031711009575 tetramer interface [polypeptide binding]; other site 1031711009576 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 1031711009577 thiamine phosphate binding site [chemical binding]; other site 1031711009578 active site 1031711009579 pyrophosphate binding site [ion binding]; other site 1031711009580 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_8; cd07246 1031711009581 putative dimer interface [polypeptide binding]; other site 1031711009582 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711009583 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 1031711009584 dimer interface [polypeptide binding]; other site 1031711009585 substrate binding site [chemical binding]; other site 1031711009586 ATP binding site [chemical binding]; other site 1031711009587 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1031711009588 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1031711009589 active site 1031711009590 dimer interface [polypeptide binding]; other site 1031711009591 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1031711009592 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1031711009593 dimer interface [polypeptide binding]; other site 1031711009594 active site 1031711009595 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1031711009596 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1031711009597 homotetramer interface [polypeptide binding]; other site 1031711009598 ligand binding site [chemical binding]; other site 1031711009599 catalytic site [active] 1031711009600 NAD binding site [chemical binding]; other site 1031711009601 Membrane protein of unknown function; Region: DUF360; cl00850 1031711009602 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 1031711009603 FAD binding site [chemical binding]; other site 1031711009604 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 1031711009605 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1031711009606 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711009607 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 1031711009608 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711009609 catalytic residue [active] 1031711009610 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1031711009611 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1031711009612 putative NAD(P) binding site [chemical binding]; other site 1031711009613 active site 1031711009614 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1031711009615 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711009616 putative C-terminal domain interface [polypeptide binding]; other site 1031711009617 putative GSH binding site (G-site) [chemical binding]; other site 1031711009618 putative dimer interface [polypeptide binding]; other site 1031711009619 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1031711009620 putative N-terminal domain interface [polypeptide binding]; other site 1031711009621 putative dimer interface [polypeptide binding]; other site 1031711009622 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711009623 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1031711009624 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1031711009625 active site 1031711009626 NTP binding site [chemical binding]; other site 1031711009627 metal binding triad [ion binding]; metal-binding site 1031711009628 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1031711009629 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 1031711009630 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711009631 substrate binding pocket [chemical binding]; other site 1031711009632 membrane-bound complex binding site; other site 1031711009633 hinge residues; other site 1031711009634 Uncharacterized conserved protein [Function unknown]; Region: COG3246 1031711009635 hypothetical protein; Provisional; Region: PRK07483 1031711009636 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 1031711009637 inhibitor-cofactor binding pocket; inhibition site 1031711009638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711009639 catalytic residue [active] 1031711009640 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1031711009641 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1031711009642 putative active site [active] 1031711009643 potential frameshift: common BLAST hit: gi|289164906|ref|YP_003455044.1| transmembrane protein 1031711009644 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711009645 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 1031711009646 active site 1031711009647 phosphorylation site [posttranslational modification] 1031711009648 intermolecular recognition site; other site 1031711009649 dimerization interface [polypeptide binding]; other site 1031711009650 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1031711009651 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1031711009652 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 1031711009653 dimerization interface [polypeptide binding]; other site 1031711009654 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 1031711009655 dimer interface [polypeptide binding]; other site 1031711009656 phosphorylation site [posttranslational modification] 1031711009657 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 1031711009658 ATP binding site [chemical binding]; other site 1031711009659 Mg2+ binding site [ion binding]; other site 1031711009660 G-X-G motif; other site 1031711009661 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1031711009662 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1031711009663 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1031711009664 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 1031711009665 S-adenosylmethionine binding site [chemical binding]; other site 1031711009666 M48 family peptidase; Provisional; Region: PRK03001 1031711009667 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711009668 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1031711009669 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1031711009670 putative active site [active] 1031711009671 substrate binding site [chemical binding]; other site 1031711009672 putative cosubstrate binding site; other site 1031711009673 catalytic site [active] 1031711009674 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1031711009675 substrate binding site [chemical binding]; other site 1031711009676 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1031711009677 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1031711009678 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 1031711009679 active site 1031711009680 catalytic residues [active] 1031711009681 metal binding site [ion binding]; metal-binding site 1031711009682 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711009683 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1031711009684 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1031711009685 DNA protecting protein DprA; Region: dprA; TIGR00732 1031711009686 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 1031711009687 catalytic residues [active] 1031711009688 DNA topoisomerase III; Validated; Region: PRK08173 1031711009689 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 1031711009690 active site 1031711009691 putative interdomain interaction site [polypeptide binding]; other site 1031711009692 putative metal-binding site [ion binding]; other site 1031711009693 putative nucleotide binding site [chemical binding]; other site 1031711009694 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 1031711009695 domain I; other site 1031711009696 DNA binding groove [nucleotide binding] 1031711009697 phosphate binding site [ion binding]; other site 1031711009698 domain II; other site 1031711009699 domain III; other site 1031711009700 nucleotide binding site [chemical binding]; other site 1031711009701 catalytic site [active] 1031711009702 domain IV; other site 1031711009703 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1031711009704 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1031711009705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711009706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711009707 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711009708 putative effector binding pocket; other site 1031711009709 dimerization interface [polypeptide binding]; other site 1031711009710 acyl-CoA synthetase; Validated; Region: PRK06178 1031711009711 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711009712 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711009713 acyl-activating enzyme (AAE) consensus motif; other site 1031711009714 acyl-activating enzyme (AAE) consensus motif; other site 1031711009715 AMP binding site [chemical binding]; other site 1031711009716 active site 1031711009717 CoA binding site [chemical binding]; other site 1031711009718 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1031711009719 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1031711009720 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1031711009721 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1031711009722 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 1031711009723 rod shape-determining protein MreC; Provisional; Region: PRK13922 1031711009724 rod shape-determining protein MreC; Region: MreC; pfam04085 1031711009725 rod shape-determining protein MreB; Provisional; Region: PRK13927 1031711009726 MreB and similar proteins; Region: MreB_like; cd10225 1031711009727 nucleotide binding site [chemical binding]; other site 1031711009728 Mg binding site [ion binding]; other site 1031711009729 putative protofilament interaction site [polypeptide binding]; other site 1031711009730 RodZ interaction site [polypeptide binding]; other site 1031711009731 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1031711009732 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1031711009733 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1031711009734 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1031711009735 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1031711009736 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1031711009737 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1031711009738 GatB domain; Region: GatB_Yqey; smart00845 1031711009739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3159 1031711009740 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1031711009741 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 1031711009742 active site 1031711009743 Int/Topo IB signature motif; other site 1031711009744 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1031711009745 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1031711009746 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1031711009747 putative RNA binding site [nucleotide binding]; other site 1031711009748 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 1031711009749 S-adenosylmethionine binding site [chemical binding]; other site 1031711009750 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1031711009751 FAD binding domain; Region: FAD_binding_4; pfam01565 1031711009752 Berberine and berberine like; Region: BBE; pfam08031 1031711009753 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 1031711009754 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1031711009755 metal binding site 2 [ion binding]; metal-binding site 1031711009756 putative DNA binding helix; other site 1031711009757 metal binding site 1 [ion binding]; metal-binding site 1031711009758 dimer interface [polypeptide binding]; other site 1031711009759 structural Zn2+ binding site [ion binding]; other site 1031711009760 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1031711009761 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1031711009762 P-loop, Walker A motif; other site 1031711009763 Base recognition motif; other site 1031711009764 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1031711009765 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1031711009766 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1031711009767 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1031711009768 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1031711009769 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1031711009770 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_2; cd08498 1031711009771 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 1031711009772 active site 1031711009773 HslU subunit interaction site [polypeptide binding]; other site 1031711009774 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1031711009775 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 1031711009776 Walker A motif; other site 1031711009777 ATP binding site [chemical binding]; other site 1031711009778 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1031711009779 Walker B motif; other site 1031711009780 arginine finger; other site 1031711009781 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1031711009782 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1031711009783 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 1031711009784 active site 1031711009785 phosphorylation site [posttranslational modification] 1031711009786 intermolecular recognition site; other site 1031711009787 dimerization interface [polypeptide binding]; other site 1031711009788 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711009789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711009790 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 1031711009791 ATP binding site [chemical binding]; other site 1031711009792 Mg2+ binding site [ion binding]; other site 1031711009793 G-X-G motif; other site 1031711009794 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1031711009795 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1031711009796 Putative zinc-finger; Region: zf-HC2; pfam13490 1031711009797 RNA polymerase sigma factor; Provisional; Region: PRK12520 1031711009798 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711009799 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 1031711009800 DNA binding residues [nucleotide binding] 1031711009801 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 1031711009802 feedback inhibition sensing region; other site 1031711009803 homohexameric interface [polypeptide binding]; other site 1031711009804 nucleotide binding site [chemical binding]; other site 1031711009805 N-acetyl-L-glutamate binding site [chemical binding]; other site 1031711009806 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1031711009807 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1031711009808 division inhibitor protein; Provisional; Region: slmA; PRK09480 1031711009809 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711009810 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1031711009811 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 1031711009812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711009813 DNA-binding site [nucleotide binding]; DNA binding site 1031711009814 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 1031711009815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711009816 homodimer interface [polypeptide binding]; other site 1031711009817 catalytic residue [active] 1031711009818 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 1031711009819 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 1031711009820 inhibitor-cofactor binding pocket; inhibition site 1031711009821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711009822 catalytic residue [active] 1031711009823 succinic semialdehyde dehydrogenase; Region: PLN02278 1031711009824 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1031711009825 tetramerization interface [polypeptide binding]; other site 1031711009826 NAD(P) binding site [chemical binding]; other site 1031711009827 catalytic residues [active] 1031711009828 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1031711009829 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1031711009830 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1031711009831 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 1031711009832 S-adenosylmethionine binding site [chemical binding]; other site 1031711009833 phasin family protein; Region: phasin; TIGR01841 1031711009834 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1031711009835 Sel1 repeat; Region: Sel1; cl02723 1031711009836 Sel1-like repeats; Region: SEL1; smart00671 1031711009837 Sel1-like repeats; Region: SEL1; smart00671 1031711009838 Sel1 repeat; Region: Sel1; cl02723 1031711009839 Uncharacterized small protein [Function unknown]; Region: COG2879 1031711009840 carbon starvation protein A; Provisional; Region: PRK15015 1031711009841 Carbon starvation protein CstA; Region: CstA; pfam02554 1031711009842 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1031711009843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1031711009844 Cache domain; Region: Cache_2; pfam08269 1031711009845 Histidine kinase; Region: HisKA_3; pfam07730 1031711009846 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 1031711009847 ATP binding site [chemical binding]; other site 1031711009848 Mg2+ binding site [ion binding]; other site 1031711009849 G-X-G motif; other site 1031711009850 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711009851 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 1031711009852 active site 1031711009853 phosphorylation site [posttranslational modification] 1031711009854 intermolecular recognition site; other site 1031711009855 dimerization interface [polypeptide binding]; other site 1031711009856 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 1031711009857 DNA binding residues [nucleotide binding] 1031711009858 dimerization interface [polypeptide binding]; other site 1031711009859 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1031711009860 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1031711009861 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1031711009862 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 1031711009863 active site 1031711009864 phosphorylation site [posttranslational modification] 1031711009865 intermolecular recognition site; other site 1031711009866 dimerization interface [polypeptide binding]; other site 1031711009867 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 1031711009868 DNA binding site [nucleotide binding] 1031711009869 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_GTP; cd00819 1031711009870 active site 1031711009871 substrate-binding site [chemical binding]; other site 1031711009872 metal-binding site [ion binding] 1031711009873 GTP binding site [chemical binding]; other site 1031711009874 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1031711009875 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1031711009876 dimerization interface [polypeptide binding]; other site 1031711009877 NAD binding site [chemical binding]; other site 1031711009878 ligand binding site [chemical binding]; other site 1031711009879 catalytic site [active] 1031711009880 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1031711009881 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1031711009882 putative active site [active] 1031711009883 metal binding site [ion binding]; metal-binding site 1031711009884 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 1031711009885 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711009886 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1031711009887 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 1031711009888 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 1031711009889 DNA-binding site [nucleotide binding]; DNA binding site 1031711009890 RNA-binding motif; other site 1031711009891 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1031711009892 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 1031711009893 P-loop; other site 1031711009894 Magnesium ion binding site [ion binding]; other site 1031711009895 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711009896 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711009897 Transposase protein; Region: Tnp_P_element; pfam12017 1031711009898 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1031711009899 active site 1031711009900 tetramer interface; other site 1031711009901 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1031711009902 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 1031711009903 putative substrate translocation pore; other site 1031711009904 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1031711009905 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 1031711009906 dimer interface [polypeptide binding]; other site 1031711009907 phosphorylation site [posttranslational modification] 1031711009908 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 1031711009909 ATP binding site [chemical binding]; other site 1031711009910 Mg2+ binding site [ion binding]; other site 1031711009911 G-X-G motif; other site 1031711009912 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1031711009913 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 1031711009914 active site 1031711009915 phosphorylation site [posttranslational modification] 1031711009916 intermolecular recognition site; other site 1031711009917 dimerization interface [polypeptide binding]; other site 1031711009918 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 1031711009919 Walker A motif; other site 1031711009920 ATP binding site [chemical binding]; other site 1031711009921 Walker B motif; other site 1031711009922 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711009923 Predicted membrane protein [Function unknown]; Region: COG4377 1031711009924 Cache domain; Region: Cache_1; pfam02743 1031711009925 FOG: HAMP domain [Signal transduction mechanisms]; Region: ResE; COG2770 1031711009926 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 1031711009927 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1031711009928 putative active site [active] 1031711009929 heme pocket [chemical binding]; other site 1031711009930 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 1031711009931 putative active site [active] 1031711009932 heme pocket [chemical binding]; other site 1031711009933 PAS fold; Region: PAS_4; pfam08448 1031711009934 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 1031711009935 putative active site [active] 1031711009936 heme pocket [chemical binding]; other site 1031711009937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711009938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711009939 metal binding site [ion binding]; metal-binding site 1031711009940 active site 1031711009941 I-site; other site 1031711009942 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711009943 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1031711009944 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711009945 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 1031711009946 TM-ABC transporter signature motif; other site 1031711009947 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711009948 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 1031711009949 TM-ABC transporter signature motif; other site 1031711009950 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711009951 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711009952 Walker A/P-loop; other site 1031711009953 ATP binding site [chemical binding]; other site 1031711009954 Q-loop/lid; other site 1031711009955 ABC transporter signature motif; other site 1031711009956 Walker B; other site 1031711009957 D-loop; other site 1031711009958 H-loop/switch region; other site 1031711009959 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711009960 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711009961 Walker A/P-loop; other site 1031711009962 ATP binding site [chemical binding]; other site 1031711009963 Q-loop/lid; other site 1031711009964 ABC transporter signature motif; other site 1031711009965 Walker B; other site 1031711009966 D-loop; other site 1031711009967 H-loop/switch region; other site 1031711009968 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711009969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711009970 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 1031711009971 dimerization interface [polypeptide binding]; other site 1031711009972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 1031711009973 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1031711009974 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1031711009975 Cl- selectivity filter; other site 1031711009976 Cl- binding residues [ion binding]; other site 1031711009977 pore gating glutamate residue; other site 1031711009978 dimer interface [polypeptide binding]; other site 1031711009979 Spherulation-specific family 4; Region: Spherulin4; pfam12138 1031711009980 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1031711009981 substrate binding site [chemical binding]; other site 1031711009982 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1031711009983 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1031711009984 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1031711009985 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711009986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711009987 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 1031711009988 dimerization interface [polypeptide binding]; other site 1031711009989 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 1031711009990 dimer interface [polypeptide binding]; other site 1031711009991 phosphorylation site [posttranslational modification] 1031711009992 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 1031711009993 ATP binding site [chemical binding]; other site 1031711009994 Mg2+ binding site [ion binding]; other site 1031711009995 G-X-G motif; other site 1031711009996 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711009997 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 1031711009998 active site 1031711009999 phosphorylation site [posttranslational modification] 1031711010000 intermolecular recognition site; other site 1031711010001 dimerization interface [polypeptide binding]; other site 1031711010002 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 1031711010003 DNA binding residues [nucleotide binding] 1031711010004 dimerization interface [polypeptide binding]; other site 1031711010005 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1031711010006 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711010007 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711010008 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711010009 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711010010 F-box domain; Region: F-box; pfam00646 1031711010011 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 1031711010012 Substrate binding site [chemical binding]; other site 1031711010013 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1031711010014 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1031711010015 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 1031711010016 active site 1031711010017 phosphorylation site [posttranslational modification] 1031711010018 intermolecular recognition site; other site 1031711010019 dimerization interface [polypeptide binding]; other site 1031711010020 H-NS histone family; Region: Histone_HNS; pfam00816 1031711010021 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711010022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1031711010023 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1031711010024 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1031711010025 Uncharacterized conserved protein [Function unknown]; Region: COG4309 1031711010026 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711010027 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1031711010028 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1031711010029 Cytochrome c; Region: Cytochrom_C; pfam00034 1031711010030 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1031711010031 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1031711010032 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1031711010033 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1031711010034 Cu(I) binding site [ion binding]; other site 1031711010035 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1031711010036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 1031711010037 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 1031711010038 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711010039 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1031711010040 active site 1031711010041 FMN binding site [chemical binding]; other site 1031711010042 substrate binding site [chemical binding]; other site 1031711010043 homotetramer interface [polypeptide binding]; other site 1031711010044 catalytic residue [active] 1031711010045 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1031711010046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711010047 NAD(P) binding site [chemical binding]; other site 1031711010048 active site 1031711010049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711010050 MarR family; Region: MarR; pfam01047 1031711010051 MarR family; Region: MarR_2; cl17246 1031711010052 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1031711010053 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 1031711010054 substrate binding site [chemical binding]; other site 1031711010055 oxyanion hole (OAH) forming residues; other site 1031711010056 trimer interface [polypeptide binding]; other site 1031711010057 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711010058 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711010059 active site 1031711010060 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711010061 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1031711010062 acyl-activating enzyme (AAE) consensus motif; other site 1031711010063 AMP binding site [chemical binding]; other site 1031711010064 active site 1031711010065 CoA binding site [chemical binding]; other site 1031711010066 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 1031711010067 active site 1031711010068 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 1031711010069 homotrimer interaction site [polypeptide binding]; other site 1031711010070 putative active site [active] 1031711010071 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711010072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1031711010073 active site 1031711010074 transposase/IS protein; Provisional; Region: PRK09183 1031711010075 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711010076 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 1031711010077 Walker A motif; other site 1031711010078 ATP binding site [chemical binding]; other site 1031711010079 Walker B motif; other site 1031711010080 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 1031711010081 DNA-binding interface [nucleotide binding]; DNA binding site 1031711010082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711010083 Integrase core domain; Region: rve; pfam00665 1031711010084 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1031711010085 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 1031711010086 putative substrate translocation pore; other site 1031711010087 Predicted transcriptional regulator [Transcription]; Region: COG3636 1031711010088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3657 1031711010089 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 1031711010090 putative substrate translocation pore; other site 1031711010091 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1031711010092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711010093 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711010094 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711010095 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1031711010096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1031711010097 PGAP1-like protein; Region: PGAP1; pfam07819 1031711010098 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1031711010099 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1031711010100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711010101 DNA-binding site [nucleotide binding]; DNA binding site 1031711010102 UTRA domain; Region: UTRA; pfam07702 1031711010103 Predicted transcriptional regulators [Transcription]; Region: COG1733 1031711010104 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1031711010105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1031711010106 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_18; cd08357 1031711010107 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711010108 putative metal binding site [ion binding]; other site 1031711010109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711010110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010111 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1031711010112 putative dimerization interface [polypeptide binding]; other site 1031711010113 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1031711010114 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711010115 N-terminal plug; other site 1031711010116 ligand-binding site [chemical binding]; other site 1031711010117 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 1031711010118 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1031711010119 G1 box; other site 1031711010120 GTP/Mg2+ binding site [chemical binding]; other site 1031711010121 G2 box; other site 1031711010122 Switch I region; other site 1031711010123 G3 box; other site 1031711010124 Switch II region; other site 1031711010125 G4 box; other site 1031711010126 G5 box; other site 1031711010127 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 1031711010128 putative hydrophobic ligand binding site [chemical binding]; other site 1031711010129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1031711010130 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1031711010131 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 1031711010132 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711010133 putative substrate translocation pore; other site 1031711010134 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 1031711010135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711010136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711010137 MoxR-like ATPases [General function prediction only]; Region: COG0714 1031711010138 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 1031711010139 ATP binding site [chemical binding]; other site 1031711010140 Walker A motif; other site 1031711010141 Walker B motif; other site 1031711010142 arginine finger; other site 1031711010143 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1031711010144 Protein of unknown function DUF58; Region: DUF58; pfam01882 1031711010145 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1031711010146 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1031711010147 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1031711010148 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_cladeA; cd00883 1031711010149 active site clefts [active] 1031711010150 zinc binding site [ion binding]; other site 1031711010151 dimer interface [polypeptide binding]; other site 1031711010152 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1031711010153 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1031711010154 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1031711010155 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1031711010156 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711010157 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711010158 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1031711010159 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1031711010160 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1031711010161 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1031711010162 substrate binding site [chemical binding]; other site 1031711010163 ligand binding site [chemical binding]; other site 1031711010164 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 1031711010165 substrate binding site [chemical binding]; other site 1031711010166 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1031711010167 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1031711010168 dimer interface [polypeptide binding]; other site 1031711010169 active site 1031711010170 citrylCoA binding site [chemical binding]; other site 1031711010171 oxalacetate/citrate binding site [chemical binding]; other site 1031711010172 coenzyme A binding site [chemical binding]; other site 1031711010173 catalytic triad [active] 1031711010174 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1031711010175 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1031711010176 tetramer interface [polypeptide binding]; other site 1031711010177 active site 1031711010178 Mg2+/Mn2+ binding site [ion binding]; other site 1031711010179 Propionate catabolism activator; Region: PrpR_N; pfam06506 1031711010180 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1031711010181 PAS domain; Region: PAS; smart00091 1031711010182 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 1031711010183 Walker A motif; other site 1031711010184 ATP binding site [chemical binding]; other site 1031711010185 Walker B motif; other site 1031711010186 arginine finger; other site 1031711010187 Predicted transcriptional regulator [Transcription]; Region: COG2944 1031711010188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1031711010189 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 1031711010190 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 1031711010191 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1031711010192 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1031711010193 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711010194 active site 1031711010195 metal binding site [ion binding]; metal-binding site 1031711010196 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711010197 Integrase core domain; Region: rve; pfam00665 1031711010198 Integrase core domain; Region: rve_3; pfam13683 1031711010199 Transposase; Region: HTH_Tnp_1; cl17663 1031711010200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711010201 NB-ARC domain; Region: NB-ARC; pfam00931 1031711010202 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711010203 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711010204 metal binding site [ion binding]; metal-binding site 1031711010205 active site 1031711010206 I-site; other site 1031711010207 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711010208 Predicted membrane protein [Function unknown]; Region: COG1289 1031711010209 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1031711010210 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1031711010211 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1031711010212 potential frameshift: common BLAST hit: gi|300696684|ref|YP_003747345.1| pectinesterase 1031711010213 putative pectinesterase; Region: PLN02432; cl01911 1031711010214 putative pectinesterase; Region: PLN02432; cl01911 1031711010215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711010216 Coenzyme A binding pocket [chemical binding]; other site 1031711010217 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1031711010218 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711010219 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1031711010220 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711010221 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 1031711010222 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 1031711010223 binding surface 1031711010224 TPR motif; other site 1031711010225 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 1031711010226 binding surface 1031711010227 TPR motif; other site 1031711010228 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711010229 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711010230 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711010231 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 1031711010232 dockerin binding interface; other site 1031711010233 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1031711010234 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 1031711010235 Walker A motif; other site 1031711010236 ATP binding site [chemical binding]; other site 1031711010237 Walker B motif; other site 1031711010238 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1031711010239 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711010240 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711010241 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1031711010242 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1031711010243 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; cd02259 1031711010244 putative active site [active] 1031711010245 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1031711010246 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010247 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010248 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1031711010249 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1031711010250 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010251 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010252 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010253 RHS Repeat; Region: RHS_repeat; pfam05593 1031711010254 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1031711010255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711010256 active site 1031711010257 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711010258 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 1031711010259 non-specific DNA binding site [nucleotide binding]; other site 1031711010260 salt bridge; other site 1031711010261 sequence-specific DNA binding site [nucleotide binding]; other site 1031711010262 CHC2 zinc finger; Region: zf-CHC2; cl17510 1031711010263 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1031711010264 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 1031711010265 active site 1031711010266 metal binding site [ion binding]; metal-binding site 1031711010267 interdomain interaction site; other site 1031711010268 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 1031711010269 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 1031711010270 active site 1031711010271 Int/Topo IB signature motif; other site 1031711010272 similar to truncated putative rhs-related protein; RSPO_m00154 1031711010273 PhoPQ-activated pathogenicity-related protein [General function prediction only]; Region: PqaA; COG4287 1031711010274 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 1031711010275 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1031711010276 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1031711010277 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1031711010278 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1031711010279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1031711010280 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711010281 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1031711010282 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1031711010283 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1031711010284 acyl-activating enzyme (AAE) consensus motif; other site 1031711010285 AMP binding site [chemical binding]; other site 1031711010286 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711010287 Condensation domain; Region: Condensation; pfam00668 1031711010288 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711010289 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1031711010290 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1031711010291 acyl-activating enzyme (AAE) consensus motif; other site 1031711010292 AMP binding site [chemical binding]; other site 1031711010293 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711010294 Condensation domain; Region: Condensation; pfam00668 1031711010295 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711010296 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1031711010297 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1031711010298 acyl-activating enzyme (AAE) consensus motif; other site 1031711010299 AMP binding site [chemical binding]; other site 1031711010300 Predicted integral membrane protein [Function unknown]; Region: COG5616 1031711010301 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1031711010302 ligand-binding site [chemical binding]; other site 1031711010303 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1031711010304 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1031711010305 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 1031711010306 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1031711010307 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1031711010308 putative hydrophobic ligand binding site [chemical binding]; other site 1031711010309 aconitate hydratase; Provisional; Region: acnA; PRK12881 1031711010310 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1031711010311 substrate binding site [chemical binding]; other site 1031711010312 ligand binding site [chemical binding]; other site 1031711010313 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 1031711010314 substrate binding site [chemical binding]; other site 1031711010315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711010316 DNA-binding site [nucleotide binding]; DNA binding site 1031711010317 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1031711010318 FCD domain; Region: FCD; pfam07729 1031711010319 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1031711010320 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 1031711010321 substrate binding pocket [chemical binding]; other site 1031711010322 membrane-bound complex binding site; other site 1031711010323 hinge residues; other site 1031711010324 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1031711010325 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1031711010326 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 1031711010327 putative substrate translocation pore; other site 1031711010328 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 1031711010329 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1031711010330 active site 1031711010331 catalytic tetrad [active] 1031711010332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711010333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010334 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1031711010335 putative dimerization interface [polypeptide binding]; other site 1031711010336 putative effector binding pocket; other site 1031711010337 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1031711010338 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711010339 PPR repeat family; Region: PPR_2; pfam13041 1031711010340 PPR repeat; Region: PPR; pfam01535 1031711010341 PPR repeat family; Region: PPR_2; pfam13041 1031711010342 PPR repeat family; Region: PPR_2; pfam13041 1031711010343 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1031711010344 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 1031711010345 dimer interface [polypeptide binding]; other site 1031711010346 active site 1031711010347 CoA binding pocket [chemical binding]; other site 1031711010348 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1031711010349 chorismate mutase; Provisional; Region: PRK09269 1031711010350 Chorismate mutase type II; Region: CM_2; cl00693 1031711010351 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1031711010352 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1031711010353 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1031711010354 AMP nucleosidase; Provisional; Region: PRK08292 1031711010355 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1031711010356 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1031711010357 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 1031711010358 dimer interface [polypeptide binding]; other site 1031711010359 conserved gate region; other site 1031711010360 putative PBP binding loops; other site 1031711010361 ABC-ATPase subunit interface; other site 1031711010362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1031711010363 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 1031711010364 ABC-ATPase subunit interface; other site 1031711010365 putative PBP binding loops; other site 1031711010366 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711010367 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 1031711010368 substrate binding pocket [chemical binding]; other site 1031711010369 membrane-bound complex binding site; other site 1031711010370 hinge residues; other site 1031711010371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711010372 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 1031711010373 dimer interface [polypeptide binding]; other site 1031711010374 phosphorylation site [posttranslational modification] 1031711010375 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 1031711010376 ATP binding site [chemical binding]; other site 1031711010377 Mg2+ binding site [ion binding]; other site 1031711010378 G-X-G motif; other site 1031711010379 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1031711010380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010381 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1031711010382 substrate binding pocket [chemical binding]; other site 1031711010383 dimerization interface [polypeptide binding]; other site 1031711010384 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1031711010385 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 1031711010386 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 1031711010387 alpha subunit interface [polypeptide binding]; other site 1031711010388 active site 1031711010389 substrate binding site [chemical binding]; other site 1031711010390 Fe binding site [ion binding]; other site 1031711010391 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1031711010392 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1031711010393 FMN-binding pocket [chemical binding]; other site 1031711010394 flavin binding motif; other site 1031711010395 phosphate binding motif [ion binding]; other site 1031711010396 beta-alpha-beta structure motif; other site 1031711010397 NAD binding pocket [chemical binding]; other site 1031711010398 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 1031711010399 catalytic loop [active] 1031711010400 iron binding site [ion binding]; other site 1031711010401 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711010402 MarR family; Region: MarR; pfam01047 1031711010403 MarR family; Region: MarR_2; cl17246 1031711010404 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 1031711010405 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 1031711010406 substrate binding site [chemical binding]; other site 1031711010407 oxyanion hole (OAH) forming residues; other site 1031711010408 trimer interface [polypeptide binding]; other site 1031711010409 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711010410 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1031711010411 NAD(P) binding site [chemical binding]; other site 1031711010412 catalytic residues [active] 1031711010413 potential frameshift: common BLAST hit: gi|300696766|ref|YP_003747427.1| coenzyme A ligase, long-chain-fatty-acid--CoA ligase 1031711010414 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711010415 acyl-activating enzyme (AAE) consensus motif; other site 1031711010416 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711010417 AMP binding site [chemical binding]; other site 1031711010418 active site 1031711010419 CoA binding site [chemical binding]; other site 1031711010420 Activator of aromatic catabolism; Region: XylR_N; pfam06505 1031711010421 V4R domain; Region: V4R; pfam02830 1031711010422 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1031711010423 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 1031711010424 Walker A motif; other site 1031711010425 ATP binding site [chemical binding]; other site 1031711010426 Walker B motif; other site 1031711010427 arginine finger; other site 1031711010428 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711010429 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711010430 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 1031711010431 NAD(P) binding site [chemical binding]; other site 1031711010432 catalytic residues [active] 1031711010433 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1031711010434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711010435 NAD(P) binding site [chemical binding]; other site 1031711010436 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 1031711010437 active site 1031711010438 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1031711010439 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 1031711010440 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711010441 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1031711010442 Horizontally Transferred TransMembrane Domain; Region: HTTM; smart00752 1031711010443 Beta-lactamase; Region: Beta-lactamase; pfam00144 1031711010444 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1031711010445 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 1031711010446 S-adenosylmethionine binding site [chemical binding]; other site 1031711010447 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1031711010448 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 1031711010449 active site 1031711010450 benzoate transport; Region: 2A0115; TIGR00895 1031711010451 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 1031711010452 putative substrate translocation pore; other site 1031711010453 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 1031711010454 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1031711010455 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1031711010456 active site 1031711010457 catalytic site [active] 1031711010458 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1031711010459 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1031711010460 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1031711010461 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1031711010462 catalytic site [active] 1031711010463 active site 1031711010464 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1031711010465 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1031711010466 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1031711010467 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1031711010468 active site 1031711010469 catalytic site [active] 1031711010470 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1031711010471 trehalose synthase; Region: treS_nterm; TIGR02456 1031711010472 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1031711010473 active site 1031711010474 catalytic site [active] 1031711010475 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1031711010476 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1031711010477 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1031711010478 active site 1031711010479 catalytic site [active] 1031711010480 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1031711010481 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1031711010482 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1031711010483 active site 1031711010484 homodimer interface [polypeptide binding]; other site 1031711010485 catalytic site [active] 1031711010486 acceptor binding site [chemical binding]; other site 1031711010487 glycogen synthase; Provisional; Region: glgA; PRK00654 1031711010488 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 1031711010489 ADP-binding pocket [chemical binding]; other site 1031711010490 homodimer interface [polypeptide binding]; other site 1031711010491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711010492 H-loop/switch region; other site 1031711010493 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1031711010494 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1031711010495 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1031711010496 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1031711010497 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711010498 N-terminal plug; other site 1031711010499 ligand-binding site [chemical binding]; other site 1031711010500 peroxiredoxin; Region: AhpC; TIGR03137 1031711010501 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 1031711010502 dimer interface [polypeptide binding]; other site 1031711010503 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1031711010504 catalytic triad [active] 1031711010505 peroxidatic and resolving cysteines [active] 1031711010506 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1031711010507 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 1031711010508 catalytic residue [active] 1031711010509 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 1031711010510 catalytic residues [active] 1031711010511 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711010512 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711010513 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1031711010514 metal binding site 2 [ion binding]; metal-binding site 1031711010515 putative DNA binding helix; other site 1031711010516 metal binding site 1 [ion binding]; metal-binding site 1031711010517 dimer interface [polypeptide binding]; other site 1031711010518 structural Zn2+ binding site [ion binding]; other site 1031711010519 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1031711010520 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1031711010521 G1 box; other site 1031711010522 GTP/Mg2+ binding site [chemical binding]; other site 1031711010523 Switch I region; other site 1031711010524 G2 box; other site 1031711010525 G3 box; other site 1031711010526 Switch II region; other site 1031711010527 G4 box; other site 1031711010528 G5 box; other site 1031711010529 Nucleoside recognition; Region: Gate; pfam07670 1031711010530 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1031711010531 Nucleoside recognition; Region: Gate; pfam07670 1031711010532 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1031711010533 Cache domain; Region: Cache_1; pfam02743 1031711010534 FOG: HAMP domain [Signal transduction mechanisms]; Region: ResE; COG2770 1031711010535 PAS fold; Region: PAS; pfam00989 1031711010536 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 1031711010537 putative active site [active] 1031711010538 heme pocket [chemical binding]; other site 1031711010539 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711010540 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711010541 metal binding site [ion binding]; metal-binding site 1031711010542 active site 1031711010543 I-site; other site 1031711010544 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 1031711010545 dimerization interface [polypeptide binding]; other site 1031711010546 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 1031711010547 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1031711010548 putative active site [active] 1031711010549 heme pocket [chemical binding]; other site 1031711010550 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 1031711010551 putative active site [active] 1031711010552 heme pocket [chemical binding]; other site 1031711010553 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 1031711010554 PAS domain; Region: PAS_9; pfam13426 1031711010555 putative active site [active] 1031711010556 heme pocket [chemical binding]; other site 1031711010557 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711010558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711010559 metal binding site [ion binding]; metal-binding site 1031711010560 active site 1031711010561 I-site; other site 1031711010562 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 1031711010563 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 1031711010564 PAS fold; Region: PAS_3; pfam08447 1031711010565 putative active site [active] 1031711010566 heme pocket [chemical binding]; other site 1031711010567 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1031711010568 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 1031711010569 dimerization interface [polypeptide binding]; other site 1031711010570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711010571 dimer interface [polypeptide binding]; other site 1031711010572 putative CheW interface [polypeptide binding]; other site 1031711010573 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1031711010574 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1031711010575 FAD binding pocket [chemical binding]; other site 1031711010576 FAD binding motif [chemical binding]; other site 1031711010577 phosphate binding motif [ion binding]; other site 1031711010578 NAD binding pocket [chemical binding]; other site 1031711010579 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1031711010580 Predicted transcriptional regulators [Transcription]; Region: COG1695 1031711010581 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1031711010582 putative substrate binding pocket [chemical binding]; other site 1031711010583 AC domain interface; other site 1031711010584 catalytic triad [active] 1031711010585 AB domain interface; other site 1031711010586 interchain disulfide; other site 1031711010587 MarR family; Region: MarR_2; pfam12802 1031711010588 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 1031711010589 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1031711010590 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1031711010591 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1031711010592 Beta-lactamase; Region: Beta-lactamase; pfam00144 1031711010593 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1031711010594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711010595 Coenzyme A binding pocket [chemical binding]; other site 1031711010596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4861 1031711010597 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 1031711010598 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 1031711010599 TIGR02679 family protein; Region: TIGR02679 1031711010600 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 1031711010601 TIGR02680 family protein; Region: TIGR02680 1031711010602 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1031711010603 TIGR02678 family protein; Region: TIGR02678 1031711010604 TIGR02677 family protein; Region: TIGR02677 1031711010605 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1031711010606 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1031711010607 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1031711010608 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 1031711010609 putative NAD(P) binding site [chemical binding]; other site 1031711010610 putative substrate binding site [chemical binding]; other site 1031711010611 catalytic Zn binding site [ion binding]; other site 1031711010612 structural Zn binding site [ion binding]; other site 1031711010613 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1031711010614 Transcriptional activator [Transcription]; Region: ChrR; COG3806 1031711010615 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1031711010616 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1031711010617 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1031711010618 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1031711010619 classical (c) SDRs; Region: SDR_c; cd05233 1031711010620 NAD(P) binding site [chemical binding]; other site 1031711010621 active site 1031711010622 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1031711010623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010624 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1031711010625 substrate binding pocket [chemical binding]; other site 1031711010626 dimerization interface [polypeptide binding]; other site 1031711010627 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1031711010628 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1031711010629 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 1031711010630 active site 1031711010631 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1031711010632 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1031711010633 putative NAD(P) binding site [chemical binding]; other site 1031711010634 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1031711010635 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711010636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711010637 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711010638 putative effector binding pocket; other site 1031711010639 dimerization interface [polypeptide binding]; other site 1031711010640 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1031711010641 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 1031711010642 dimer interface [polypeptide binding]; other site 1031711010643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711010644 catalytic residue [active] 1031711010645 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1031711010646 Trehalase; Region: Trehalase; cl17346 1031711010647 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1031711010648 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1031711010649 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1031711010650 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1031711010651 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1031711010652 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 1031711010653 binding surface 1031711010654 TPR motif; other site 1031711010655 TPR repeat; Region: TPR_11; pfam13414 1031711010656 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 1031711010657 binding surface 1031711010658 TPR motif; other site 1031711010659 TPR repeat; Region: TPR_11; pfam13414 1031711010660 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 1031711010661 TPR motif; other site 1031711010662 binding surface 1031711010663 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1031711010664 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1031711010665 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711010666 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 1031711010667 DNA binding residues [nucleotide binding] 1031711010668 dimerization interface [polypeptide binding]; other site 1031711010669 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 1031711010670 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1031711010671 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1031711010672 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711010673 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711010674 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1031711010675 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1031711010676 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1031711010677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711010678 Walker A/P-loop; other site 1031711010679 ATP binding site [chemical binding]; other site 1031711010680 Q-loop/lid; other site 1031711010681 ABC transporter signature motif; other site 1031711010682 Walker B; other site 1031711010683 D-loop; other site 1031711010684 H-loop/switch region; other site 1031711010685 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1031711010686 nucleophilic elbow; other site 1031711010687 catalytic triad; other site 1031711010688 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1031711010689 Cadherin repeat-like domain; Region: CA_like; cl15786 1031711010690 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1031711010691 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1031711010692 hypothetical protein; Provisional; Region: PRK09946 1031711010693 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1031711010694 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1031711010695 Walker A/P-loop; other site 1031711010696 ATP binding site [chemical binding]; other site 1031711010697 Q-loop/lid; other site 1031711010698 ABC transporter signature motif; other site 1031711010699 Walker B; other site 1031711010700 D-loop; other site 1031711010701 H-loop/switch region; other site 1031711010702 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 1031711010703 dimer interface [polypeptide binding]; other site 1031711010704 conserved gate region; other site 1031711010705 putative PBP binding loops; other site 1031711010706 ABC-ATPase subunit interface; other site 1031711010707 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 1031711010708 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711010709 substrate binding pocket [chemical binding]; other site 1031711010710 membrane-bound complex binding site; other site 1031711010711 hinge residues; other site 1031711010712 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711010713 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1031711010714 putative DNA binding site [nucleotide binding]; other site 1031711010715 putative Zn2+ binding site [ion binding]; other site 1031711010716 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711010717 ornithine cyclodeaminase; Validated; Region: PRK07589 1031711010718 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1031711010719 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 1031711010720 Amidinotransferase; Region: Amidinotransf; pfam02274 1031711010721 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1031711010722 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 1031711010723 motif II; other site 1031711010724 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 1031711010725 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1031711010726 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 1031711010727 active site 1031711010728 hypothetical protein; Provisional; Region: PRK08262 1031711010729 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 1031711010730 metal binding site [ion binding]; metal-binding site 1031711010731 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1031711010732 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 1031711010733 dimer interface [polypeptide binding]; other site 1031711010734 phosphorylation site [posttranslational modification] 1031711010735 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 1031711010736 ATP binding site [chemical binding]; other site 1031711010737 Mg2+ binding site [ion binding]; other site 1031711010738 G-X-G motif; other site 1031711010739 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1031711010740 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 1031711010741 active site 1031711010742 phosphorylation site [posttranslational modification] 1031711010743 intermolecular recognition site; other site 1031711010744 dimerization interface [polypeptide binding]; other site 1031711010745 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 1031711010746 DNA binding site [nucleotide binding] 1031711010747 Outer membrane efflux protein; Region: OEP; pfam02321 1031711010748 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1031711010749 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711010750 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1031711010751 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1031711010752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711010753 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1031711010754 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711010755 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1031711010756 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1031711010757 HIT family signature motif; other site 1031711010758 catalytic residue [active] 1031711010759 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1031711010760 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1031711010761 putative ligand binding site [chemical binding]; other site 1031711010762 NAD binding site [chemical binding]; other site 1031711010763 catalytic site [active] 1031711010764 potential frameshift: common BLAST hit: gi|17548727|ref|NP_522067.1| glycine-rich transmembrane protein 1031711010765 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711010766 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1031711010767 dimer interface [polypeptide binding]; other site 1031711010768 ligand binding site [chemical binding]; other site 1031711010769 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 1031711010770 dimerization interface [polypeptide binding]; other site 1031711010771 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711010772 dimer interface [polypeptide binding]; other site 1031711010773 putative CheW interface [polypeptide binding]; other site 1031711010774 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1031711010775 active site 1031711010776 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1031711010777 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1031711010778 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 1031711010779 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1031711010780 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 1031711010781 active site 1031711010782 homodimer interface [polypeptide binding]; other site 1031711010783 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 1031711010784 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1031711010785 NodB motif; other site 1031711010786 putative active site [active] 1031711010787 putative catalytic site [active] 1031711010788 putative Zn binding site [ion binding]; other site 1031711010789 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1031711010790 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1031711010791 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1031711010792 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1031711010793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711010794 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711010795 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711010796 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1031711010797 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1031711010798 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711010799 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711010800 metal binding site [ion binding]; metal-binding site 1031711010801 active site 1031711010802 I-site; other site 1031711010803 manganese transport protein MntH; Reviewed; Region: PRK00701 1031711010804 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1031711010805 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1031711010806 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 1031711010807 nucleotide binding site [chemical binding]; other site 1031711010808 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1031711010809 SBD interface [polypeptide binding]; other site 1031711010810 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; cl02542 1031711010811 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1031711010812 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 1031711010813 active site 1031711010814 phosphorylation site [posttranslational modification] 1031711010815 intermolecular recognition site; other site 1031711010816 dimerization interface [polypeptide binding]; other site 1031711010817 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 1031711010818 DNA binding site [nucleotide binding] 1031711010819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711010820 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 1031711010821 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 1031711010822 ATP binding site [chemical binding]; other site 1031711010823 Mg2+ binding site [ion binding]; other site 1031711010824 G-X-G motif; other site 1031711010825 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1031711010826 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1031711010827 NAD binding site [chemical binding]; other site 1031711010828 putative active site [active] 1031711010829 substrate binding site [chemical binding]; other site 1031711010830 Predicted transcriptional regulator [Transcription]; Region: COG1959 1031711010831 Transcriptional regulator; Region: Rrf2; pfam02082 1031711010832 Transcriptional regulator; Region: Rrf2; cl17282 1031711010833 Outer membrane efflux protein; Region: OEP; pfam02321 1031711010834 Outer membrane efflux protein; Region: OEP; pfam02321 1031711010835 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711010836 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1031711010837 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711010838 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1031711010839 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1031711010840 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1031711010841 Peptidase family M1; Region: Peptidase_M1; pfam01433 1031711010842 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1031711010843 Zn binding site [ion binding]; other site 1031711010844 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1031711010845 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711010846 active site 1031711010847 metal binding site [ion binding]; metal-binding site 1031711010848 hexamer interface [polypeptide binding]; other site 1031711010849 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 1031711010850 High-affinity nickel-transport protein; Region: NicO; cl00964 1031711010851 High-affinity nickel-transport protein; Region: NicO; cl00964 1031711010852 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1031711010853 putative metal binding site [ion binding]; other site 1031711010854 putative homodimer interface [polypeptide binding]; other site 1031711010855 putative homotetramer interface [polypeptide binding]; other site 1031711010856 putative homodimer-homodimer interface [polypeptide binding]; other site 1031711010857 putative allosteric switch controlling residues; other site 1031711010858 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 1031711010859 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1031711010860 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1031711010861 Chromate transporter; Region: Chromate_transp; pfam02417 1031711010862 Uncharacterized conserved protein [Function unknown]; Region: COG4275 1031711010863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1031711010864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711010865 Coenzyme A binding pocket [chemical binding]; other site 1031711010866 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1031711010867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010868 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 1031711010869 dimerization interface [polypeptide binding]; other site 1031711010870 hypothetical protein; Validated; Region: PRK09169 1031711010871 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711010872 metal binding triad [ion binding]; metal-binding site 1031711010873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711010874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711010875 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 1031711010876 dimerization interface [polypeptide binding]; other site 1031711010877 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711010878 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711010879 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 1031711010880 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 1031711010881 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1031711010882 Low-spin heme binding site [chemical binding]; other site 1031711010883 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1031711010884 D-pathway; other site 1031711010885 Putative water exit pathway; other site 1031711010886 Binuclear center (active site) [active] 1031711010887 K-pathway; other site 1031711010888 Putative proton exit pathway; other site 1031711010889 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1031711010890 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1031711010891 Cytochrome c; Region: Cytochrom_C; pfam00034 1031711010892 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1031711010893 Cu(I) binding site [ion binding]; other site 1031711010894 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 1031711010895 rRNA binding site [nucleotide binding]; other site 1031711010896 predicted 30S ribosome binding site; other site 1031711010897 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711010898 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 1031711010899 putative DNA binding site [nucleotide binding]; other site 1031711010900 putative Zn2+ binding site [ion binding]; other site 1031711010901 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711010902 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711010903 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 1031711010904 DNA-binding interface [nucleotide binding]; DNA binding site 1031711010905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711010906 Integrase core domain; Region: rve; pfam00665 1031711010907 transposase/IS protein; Provisional; Region: PRK09183 1031711010908 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711010909 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 1031711010910 Walker A motif; other site 1031711010911 ATP binding site [chemical binding]; other site 1031711010912 Walker B motif; other site 1031711010913 Cellobiohydrolase A (1,4-beta-cellobiosidase A) [Carbohydrate transport and metabolism]; Region: CelA; COG5297 1031711010914 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 1031711010915 CBD_II domain; Region: CBD_II; smart00637 1031711010916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1031711010917 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1031711010918 Helix-turn-helix domain; Region: HTH_28; pfam13518 1031711010919 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1031711010920 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 1031711010921 homotrimer interaction site [polypeptide binding]; other site 1031711010922 putative active site [active] 1031711010923 Plant protein of unknown function (DUF869); Region: DUF869; pfam05911 1031711010924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1031711010925 Integrase core domain; Region: rve; pfam00665 1031711010926 Integrase core domain; Region: rve_3; pfam13683 1031711010927 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711010928 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711010929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711010930 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711010931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711010932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711010933 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1031711010934 short chain dehydrogenase; Provisional; Region: PRK06179 1031711010935 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1031711010936 NADP binding site [chemical binding]; other site 1031711010937 active site 1031711010938 steroid binding site; other site 1031711010939 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1031711010940 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 1031711010941 putative substrate translocation pore; other site 1031711010942 Copper resistance protein D; Region: CopD; cl00563 1031711010943 CopC domain; Region: CopC; pfam04234 1031711010944 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1031711010945 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1031711010946 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711010947 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1031711010948 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1031711010949 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1031711010950 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 1031711010951 active site 1031711010952 phosphorylation site [posttranslational modification] 1031711010953 intermolecular recognition site; other site 1031711010954 dimerization interface [polypeptide binding]; other site 1031711010955 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 1031711010956 DNA binding site [nucleotide binding] 1031711010957 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1031711010958 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 1031711010959 dimerization interface [polypeptide binding]; other site 1031711010960 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 1031711010961 dimer interface [polypeptide binding]; other site 1031711010962 phosphorylation site [posttranslational modification] 1031711010963 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 1031711010964 ATP binding site [chemical binding]; other site 1031711010965 Mg2+ binding site [ion binding]; other site 1031711010966 G-X-G motif; other site 1031711010967 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1031711010968 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1031711010969 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 1031711010970 motif II; other site 1031711010971 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1031711010972 similar to 5-truncated bacteriophage related protein; RSPO_m00436 1031711010973 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711010974 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1031711010975 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 1031711010976 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711010977 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711010978 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711010979 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1031711010980 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1031711010981 Fic family protein [Function unknown]; Region: COG3177 1031711010982 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1031711010983 Fic/DOC family; Region: Fic; pfam02661 1031711010984 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1031711010985 similar to 5-truncated dna helicase related protein; RSPO_m00446 1031711010986 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1031711010987 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1031711010988 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1031711010989 heme binding pocket [chemical binding]; other site 1031711010990 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1031711010991 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1031711010992 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1031711010993 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1031711010994 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1031711010995 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1031711010996 PapC C-terminal domain; Region: PapC_C; pfam13953 1031711010997 Spore Coat Protein U domain; Region: SCPU; pfam05229 1031711010998 Uncharacterized secreted protein [Function unknown]; Region: COG5430 1031711010999 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1031711011000 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1031711011001 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1031711011002 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1031711011003 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1031711011004 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1031711011005 Putative catalytic domain, repeat 1, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_1; cd09172 1031711011006 PLD-like domain; Region: PLDc_2; pfam13091 1031711011007 putative active site [active] 1031711011008 catalytic site [active] 1031711011009 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1031711011010 PLD-like domain; Region: PLDc_2; pfam13091 1031711011011 putative active site [active] 1031711011012 catalytic site [active] 1031711011013 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 1031711011014 Immunoglobulin I-set domain; Region: I-set; pfam07679 1031711011015 Immunoglobulin like; Region: IG_like; smart00410 1031711011016 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1031711011017 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1031711011018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711011019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711011020 metal binding site [ion binding]; metal-binding site 1031711011021 active site 1031711011022 I-site; other site 1031711011023 Predicted integral membrane protein [Function unknown]; Region: COG0392 1031711011024 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1031711011025 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1031711011026 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1031711011027 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1031711011028 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1031711011029 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1031711011030 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1031711011031 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 1031711011032 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1031711011033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1031711011034 YheO-like PAS domain; Region: PAS_6; pfam08348 1031711011035 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 1031711011036 DNA-binding interface [nucleotide binding]; DNA binding site 1031711011037 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1031711011038 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 1031711011039 tetramer interface [polypeptide binding]; other site 1031711011040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711011041 catalytic residue [active] 1031711011042 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 1031711011043 homotrimer interaction site [polypeptide binding]; other site 1031711011044 putative active site [active] 1031711011045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011047 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 1031711011048 dimerization interface [polypeptide binding]; other site 1031711011049 Predicted membrane protein [Function unknown]; Region: COG4125 1031711011050 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1031711011051 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1031711011052 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 1031711011053 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711011054 DNA binding residues [nucleotide binding] 1031711011055 dimerization interface [polypeptide binding]; other site 1031711011056 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711011057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711011058 metal binding site [ion binding]; metal-binding site 1031711011059 active site 1031711011060 I-site; other site 1031711011061 Protein of unknown function, DUF488; Region: DUF488; cl01246 1031711011062 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1031711011063 NMT1-like family; Region: NMT1_2; pfam13379 1031711011064 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1031711011065 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 1031711011066 putative PBP binding loops; other site 1031711011067 ABC-ATPase subunit interface; other site 1031711011068 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1031711011069 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1031711011070 Walker A/P-loop; other site 1031711011071 ATP binding site [chemical binding]; other site 1031711011072 Q-loop/lid; other site 1031711011073 ABC transporter signature motif; other site 1031711011074 Walker B; other site 1031711011075 D-loop; other site 1031711011076 H-loop/switch region; other site 1031711011077 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1031711011078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711011079 DNA-binding site [nucleotide binding]; DNA binding site 1031711011080 UTRA domain; Region: UTRA; pfam07702 1031711011081 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1031711011082 Peptidase family U32; Region: Peptidase_U32; pfam01136 1031711011083 putative protease; Provisional; Region: PRK15447 1031711011084 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1031711011085 SCP-2 sterol transfer family; Region: SCP2; cl01225 1031711011086 Uncharacterized conserved protein [Function unknown]; Region: COG4273 1031711011087 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1031711011088 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 1031711011089 ligand binding site [chemical binding]; other site 1031711011090 flexible hinge region; other site 1031711011091 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 1031711011092 putative switch regulator; other site 1031711011093 non-specific DNA interactions [nucleotide binding]; other site 1031711011094 DNA binding site [nucleotide binding] 1031711011095 sequence specific DNA binding site [nucleotide binding]; other site 1031711011096 putative cAMP binding site [chemical binding]; other site 1031711011097 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1031711011098 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 1031711011099 FeS/SAM binding site; other site 1031711011100 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1031711011101 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1031711011102 ATP cone domain; Region: ATP-cone; pfam03477 1031711011103 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1031711011104 effector binding site; other site 1031711011105 active site 1031711011106 Zn binding site [ion binding]; other site 1031711011107 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1031711011108 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 1031711011109 putative substrate translocation pore; other site 1031711011110 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1031711011111 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1031711011112 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 1031711011113 [4Fe-4S] binding site [ion binding]; other site 1031711011114 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 1031711011115 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 1031711011116 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 1031711011117 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 1031711011118 molybdopterin cofactor binding site; other site 1031711011119 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1031711011120 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1031711011121 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1031711011122 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1031711011123 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 1031711011124 Walker A motif; other site 1031711011125 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1031711011126 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1031711011127 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 1031711011128 dimerization interface [polypeptide binding]; other site 1031711011129 GAF domain; Region: GAF_3; pfam13492 1031711011130 Histidine kinase; Region: HisKA_3; pfam07730 1031711011131 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 1031711011132 ATP binding site [chemical binding]; other site 1031711011133 Mg2+ binding site [ion binding]; other site 1031711011134 G-X-G motif; other site 1031711011135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711011136 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 1031711011137 active site 1031711011138 phosphorylation site [posttranslational modification] 1031711011139 intermolecular recognition site; other site 1031711011140 dimerization interface [polypeptide binding]; other site 1031711011141 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 1031711011142 DNA binding residues [nucleotide binding] 1031711011143 dimerization interface [polypeptide binding]; other site 1031711011144 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1031711011145 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1031711011146 putative acyl-acceptor binding pocket; other site 1031711011147 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1031711011148 NnrS protein; Region: NnrS; pfam05940 1031711011149 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1031711011150 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1031711011151 putative catalytic residue [active] 1031711011152 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1031711011153 Predicted flavoprotein [General function prediction only]; Region: COG0431 1031711011154 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711011155 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1031711011156 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1031711011157 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1031711011158 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1031711011159 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 1031711011160 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1031711011161 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711011162 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1031711011163 catalytic site [active] 1031711011164 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 1031711011165 hypothetical protein; Provisional; Region: PRK09040 1031711011166 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711011167 ligand binding site [chemical binding]; other site 1031711011168 Domain of unknown function (DUF802); Region: DUF802; pfam05650 1031711011169 Domain of unknown function (DUF802); Region: DUF802; pfam05650 1031711011170 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 1031711011171 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1031711011172 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1031711011173 homodimer interface [polypeptide binding]; other site 1031711011174 substrate-cofactor binding pocket; other site 1031711011175 catalytic residue [active] 1031711011176 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711011177 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1031711011178 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1031711011179 putative N-terminal domain interface [polypeptide binding]; other site 1031711011180 putative dimer interface [polypeptide binding]; other site 1031711011181 putative substrate binding pocket (H-site) [chemical binding]; other site 1031711011182 Domain of unknown function (DUF932); Region: DUF932; cl12129 1031711011183 Domain of unknown function (DUF932); Region: DUF932; cl12129 1031711011184 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1031711011185 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1031711011186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711011187 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1031711011188 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1031711011189 putative lipid binding site [chemical binding]; other site 1031711011190 short chain dehydrogenase; Validated; Region: PRK06182 1031711011191 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1031711011192 NADP binding site [chemical binding]; other site 1031711011193 active site 1031711011194 steroid binding site; other site 1031711011195 AAA domain; Region: AAA_25; pfam13481 1031711011196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011198 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 1031711011199 dimerization interface [polypeptide binding]; other site 1031711011200 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1031711011201 EamA-like transporter family; Region: EamA; pfam00892 1031711011202 EamA-like transporter family; Region: EamA; pfam00892 1031711011203 hypothetical protein; Provisional; Region: PRK06489 1031711011204 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711011205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711011206 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1031711011207 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1031711011208 putative NAD(P) binding site [chemical binding]; other site 1031711011209 short chain dehydrogenase; Provisional; Region: PRK06179 1031711011210 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1031711011211 NADP binding site [chemical binding]; other site 1031711011212 active site 1031711011213 steroid binding site; other site 1031711011214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711011215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711011216 transposase/IS protein; Provisional; Region: PRK09183 1031711011217 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711011218 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 1031711011219 Walker A motif; other site 1031711011220 ATP binding site [chemical binding]; other site 1031711011221 Walker B motif; other site 1031711011222 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 1031711011223 DNA-binding interface [nucleotide binding]; DNA binding site 1031711011224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711011225 Integrase core domain; Region: rve; pfam00665 1031711011226 RibD C-terminal domain; Region: RibD_C; cl17279 1031711011227 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711011228 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 1031711011229 putative DNA binding site [nucleotide binding]; other site 1031711011230 dimerization interface [polypeptide binding]; other site 1031711011231 putative Zn2+ binding site [ion binding]; other site 1031711011232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711011233 Coenzyme A binding pocket [chemical binding]; other site 1031711011234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1031711011235 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 1031711011236 homotrimer interaction site [polypeptide binding]; other site 1031711011237 putative active site [active] 1031711011238 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1031711011239 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1031711011240 dimer interface [polypeptide binding]; other site 1031711011241 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1031711011242 active site 1031711011243 Fe binding site [ion binding]; other site 1031711011244 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1031711011245 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 1031711011246 putative DNA binding site [nucleotide binding]; other site 1031711011247 putative Zn2+ binding site [ion binding]; other site 1031711011248 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711011249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711011250 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711011251 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711011252 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1031711011253 PAAR motif; Region: PAAR_motif; pfam05488 1031711011254 RHS Repeat; Region: RHS_repeat; cl11982 1031711011255 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1031711011256 RHS Repeat; Region: RHS_repeat; pfam05593 1031711011257 RHS Repeat; Region: RHS_repeat; pfam05593 1031711011258 RHS Repeat; Region: RHS_repeat; pfam05593 1031711011259 RHS Repeat; Region: RHS_repeat; pfam05593 1031711011260 RHS Repeat; Region: RHS_repeat; pfam05593 1031711011261 RHS protein; Region: RHS; pfam03527 1031711011262 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1031711011263 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 1031711011264 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1031711011265 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 1031711011266 active site 1031711011267 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711011268 Integrase core domain; Region: rve; pfam00665 1031711011269 Integrase core domain; Region: rve_3; pfam13683 1031711011270 Transposase; Region: HTH_Tnp_1; cl17663 1031711011271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711011272 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 1031711011273 active site 1031711011274 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1031711011275 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1031711011276 MOFRL family; Region: MOFRL; pfam05161 1031711011277 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1031711011278 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1031711011279 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1031711011280 tartrate dehydrogenase; Region: TTC; TIGR02089 1031711011281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011283 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1031711011284 putative effector binding pocket; other site 1031711011285 putative dimerization interface [polypeptide binding]; other site 1031711011286 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1031711011287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711011288 NAD(P) binding site [chemical binding]; other site 1031711011289 active site 1031711011290 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1031711011291 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1031711011292 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1031711011293 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711011294 catalytic site [active] 1031711011295 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1031711011296 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1031711011297 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1031711011298 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 1031711011299 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711011300 putative substrate translocation pore; other site 1031711011301 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 1031711011302 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1031711011303 active site 1031711011304 catalytic tetrad [active] 1031711011305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011307 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711011308 putative effector binding pocket; other site 1031711011309 dimerization interface [polypeptide binding]; other site 1031711011310 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1031711011311 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711011312 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711011313 active site 1031711011314 metal binding site [ion binding]; metal-binding site 1031711011315 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 1031711011316 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1031711011317 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1031711011318 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1031711011319 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1031711011320 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1031711011321 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 1031711011322 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711011323 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711011324 active site 1031711011325 similar to truncated nad-dependent mannitol dehydrogenase; RSPO_m00598 1031711011326 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 1031711011327 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1031711011328 active site 1031711011329 catalytic tetrad [active] 1031711011330 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1031711011331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011333 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1031711011334 putative effector binding pocket; other site 1031711011335 putative dimerization interface [polypeptide binding]; other site 1031711011336 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1031711011337 dimerization interface [polypeptide binding]; other site 1031711011338 DNA binding residues [nucleotide binding] 1031711011339 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1031711011340 Tyrosine phosphatase family; Region: Y_phosphatase2; pfam03162 1031711011341 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1031711011342 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 1031711011343 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1031711011344 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1031711011345 FtsX-like permease family; Region: FtsX; pfam02687 1031711011346 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1031711011347 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1031711011348 Walker A/P-loop; other site 1031711011349 ATP binding site [chemical binding]; other site 1031711011350 Q-loop/lid; other site 1031711011351 ABC transporter signature motif; other site 1031711011352 Walker B; other site 1031711011353 D-loop; other site 1031711011354 H-loop/switch region; other site 1031711011355 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711011356 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711011357 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711011358 Outer membrane efflux protein; Region: OEP; pfam02321 1031711011359 Outer membrane efflux protein; Region: OEP; pfam02321 1031711011360 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1031711011361 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 1031711011362 amidase catalytic site [active] 1031711011363 Zn binding residues [ion binding]; other site 1031711011364 substrate binding site [chemical binding]; other site 1031711011365 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1031711011366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711011367 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711011368 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1031711011369 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1031711011370 active site 1031711011371 tetramer interface [polypeptide binding]; other site 1031711011372 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1031711011373 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1031711011374 active site 1031711011375 tyramine oxidase; Provisional; Region: tynA; PRK14696 1031711011376 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1031711011377 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 1031711011378 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 1031711011379 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 1031711011380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711011381 Protein export membrane protein; Region: SecD_SecF; cl14618 1031711011382 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711011383 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711011384 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711011385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711011386 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 1031711011387 active site 1031711011388 phosphorylation site [posttranslational modification] 1031711011389 intermolecular recognition site; other site 1031711011390 dimerization interface [polypeptide binding]; other site 1031711011391 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 1031711011392 DNA binding site [nucleotide binding] 1031711011393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711011394 HAMP domain; Region: HAMP; pfam00672 1031711011395 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 1031711011396 dimer interface [polypeptide binding]; other site 1031711011397 phosphorylation site [posttranslational modification] 1031711011398 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 1031711011399 ATP binding site [chemical binding]; other site 1031711011400 Mg2+ binding site [ion binding]; other site 1031711011401 G-X-G motif; other site 1031711011402 Cytochrome c [Energy production and conversion]; Region: COG3258 1031711011403 Cytochrome c; Region: Cytochrom_C; pfam00034 1031711011404 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 1031711011405 active site 1031711011406 Mn binding site [ion binding]; other site 1031711011407 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711011408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711011409 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1031711011410 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1031711011411 NAD(P) binding site [chemical binding]; other site 1031711011412 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1031711011413 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 1031711011414 S-adenosylmethionine binding site [chemical binding]; other site 1031711011415 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]; Region: COG4875 1031711011416 SnoaL-like domain; Region: SnoaL_3; pfam13474 1031711011417 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711011418 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 1031711011419 active site 1031711011420 phosphorylation site [posttranslational modification] 1031711011421 intermolecular recognition site; other site 1031711011422 dimerization interface [polypeptide binding]; other site 1031711011423 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 1031711011424 DNA binding site [nucleotide binding] 1031711011425 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711011426 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 1031711011427 dimerization interface [polypeptide binding]; other site 1031711011428 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 1031711011429 dimer interface [polypeptide binding]; other site 1031711011430 phosphorylation site [posttranslational modification] 1031711011431 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 1031711011432 ATP binding site [chemical binding]; other site 1031711011433 Mg2+ binding site [ion binding]; other site 1031711011434 G-X-G motif; other site 1031711011435 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1031711011436 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711011437 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711011438 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1031711011439 putative ligand binding site [chemical binding]; other site 1031711011440 Predicted periplasmic protein [Function unknown]; Region: COG3904 1031711011441 transcriptional activator FlhD; Provisional; Region: PRK02909 1031711011442 transcriptional activator FlhC; Provisional; Region: PRK12722 1031711011443 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1031711011444 flagellar motor protein MotA; Validated; Region: PRK09110 1031711011445 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1031711011446 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1031711011447 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711011448 ligand binding site [chemical binding]; other site 1031711011449 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711011450 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 1031711011451 active site 1031711011452 phosphorylation site [posttranslational modification] 1031711011453 intermolecular recognition site; other site 1031711011454 dimerization interface [polypeptide binding]; other site 1031711011455 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 1031711011456 putative binding surface; other site 1031711011457 active site 1031711011458 CheY binding; Region: CheY-binding; pfam09078 1031711011459 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1031711011460 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 1031711011461 ATP binding site [chemical binding]; other site 1031711011462 Mg2+ binding site [ion binding]; other site 1031711011463 G-X-G motif; other site 1031711011464 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 1031711011465 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 1031711011466 putative CheA interaction surface; other site 1031711011467 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711011468 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1031711011469 dimer interface [polypeptide binding]; other site 1031711011470 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 1031711011471 dimerization interface [polypeptide binding]; other site 1031711011472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711011473 dimer interface [polypeptide binding]; other site 1031711011474 putative CheW interface [polypeptide binding]; other site 1031711011475 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1031711011476 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1031711011477 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 1031711011478 CheD chemotactic sensory transduction; Region: CheD; cl00810 1031711011479 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1031711011480 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 1031711011481 active site 1031711011482 phosphorylation site [posttranslational modification] 1031711011483 intermolecular recognition site; other site 1031711011484 dimerization interface [polypeptide binding]; other site 1031711011485 CheB methylesterase; Region: CheB_methylest; pfam01339 1031711011486 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1031711011487 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 1031711011488 active site 1031711011489 phosphorylation site [posttranslational modification] 1031711011490 intermolecular recognition site; other site 1031711011491 dimerization interface [polypeptide binding]; other site 1031711011492 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1031711011493 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711011494 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 1031711011495 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711011496 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1031711011497 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1031711011498 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1031711011499 dimer interface [polypeptide binding]; other site 1031711011500 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1031711011501 active site 1031711011502 Fe binding site [ion binding]; other site 1031711011503 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711011504 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711011505 trimer interface [polypeptide binding]; other site 1031711011506 eyelet of channel; other site 1031711011507 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1031711011508 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1031711011509 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1031711011510 shikimate binding site; other site 1031711011511 NAD(P) binding site [chemical binding]; other site 1031711011512 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 1031711011513 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1031711011514 active site 1031711011515 trimer interface [polypeptide binding]; other site 1031711011516 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 1031711011517 putative substrate translocation pore; other site 1031711011518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711011519 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711011520 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1031711011521 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1031711011522 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1031711011523 FHIPEP family; Region: FHIPEP; pfam00771 1031711011524 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 1031711011525 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 1031711011526 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 1031711011527 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 1031711011528 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1031711011529 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711011530 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1031711011531 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 1031711011532 DNA binding residues [nucleotide binding] 1031711011533 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1031711011534 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1031711011535 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5544 1031711011536 YGGT family; Region: YGGT; pfam02325 1031711011537 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1031711011538 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 1031711011539 substrate binding pocket [chemical binding]; other site 1031711011540 membrane-bound complex binding site; other site 1031711011541 hinge residues; other site 1031711011542 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 1031711011543 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1031711011544 NodB motif; other site 1031711011545 putative active site [active] 1031711011546 putative catalytic site [active] 1031711011547 putative Zn binding site [ion binding]; other site 1031711011548 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1031711011549 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1031711011550 PhnA protein; Region: PhnA; pfam03831 1031711011551 mercuric reductase; Validated; Region: PRK06370 1031711011552 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711011553 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1031711011554 hypothetical protein; Validated; Region: PRK09169 1031711011555 Predicted membrane protein [Function unknown]; Region: COG3759 1031711011556 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1031711011557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1031711011558 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1031711011559 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 1031711011560 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 1031711011561 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711011562 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711011563 Walker A/P-loop; other site 1031711011564 ATP binding site [chemical binding]; other site 1031711011565 Q-loop/lid; other site 1031711011566 ABC transporter signature motif; other site 1031711011567 Walker B; other site 1031711011568 D-loop; other site 1031711011569 H-loop/switch region; other site 1031711011570 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711011571 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711011572 Walker A/P-loop; other site 1031711011573 ATP binding site [chemical binding]; other site 1031711011574 Q-loop/lid; other site 1031711011575 ABC transporter signature motif; other site 1031711011576 Walker B; other site 1031711011577 D-loop; other site 1031711011578 H-loop/switch region; other site 1031711011579 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711011580 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 1031711011581 TM-ABC transporter signature motif; other site 1031711011582 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 1031711011583 TM-ABC transporter signature motif; other site 1031711011584 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1031711011585 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1031711011586 putative ligand binding site [chemical binding]; other site 1031711011587 Predicted membrane protein [Function unknown]; Region: COG3766 1031711011588 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1031711011589 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 1031711011590 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 1031711011591 Short C-terminal domain; Region: SHOCT; pfam09851 1031711011592 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 1031711011593 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 1031711011594 S-adenosylmethionine decarboxylase [Amino acid transport and metabolism]; Region: SpeD; COG1586 1031711011595 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1031711011596 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711011597 putative CheW interface [polypeptide binding]; other site 1031711011598 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1031711011599 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1031711011600 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1031711011601 Type II transport protein GspH; Region: GspH; pfam12019 1031711011602 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1031711011603 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1031711011604 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1031711011605 PilX N-terminal; Region: PilX_N; pfam14341 1031711011606 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1031711011607 legume lectins; Region: lectin_L-type; cl14058 1031711011608 carbohydrate binding site [chemical binding]; other site 1031711011609 metal binding site [ion binding]; metal-binding site 1031711011610 homotetramer interaction site [polypeptide binding]; other site 1031711011611 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1031711011612 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1031711011613 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1031711011614 Class II fumarases; Region: Fumarase_classII; cd01362 1031711011615 active site 1031711011616 tetramer interface [polypeptide binding]; other site 1031711011617 putative transporter; Provisional; Region: PRK10504 1031711011618 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 1031711011619 putative substrate translocation pore; other site 1031711011620 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1031711011621 Family description; Region: UvrD_C_2; pfam13538 1031711011622 hypothetical protein; Provisional; Region: PRK02237 1031711011623 Conserved TM helix; Region: TM_helix; pfam05552 1031711011624 Conserved TM helix; Region: TM_helix; pfam05552 1031711011625 Conserved TM helix; Region: TM_helix; pfam05552 1031711011626 Archaeal ATPase; Region: Arch_ATPase; pfam01637 1031711011627 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1031711011628 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1031711011629 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1031711011630 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711011631 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711011632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711011633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011634 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1031711011635 putative dimerization interface [polypeptide binding]; other site 1031711011636 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1031711011637 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 1031711011638 active site 1031711011639 acyl-activating enzyme (AAE) consensus motif; other site 1031711011640 putative CoA binding site [chemical binding]; other site 1031711011641 AMP binding site [chemical binding]; other site 1031711011642 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1031711011643 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 1031711011644 L-aspartate oxidase; Provisional; Region: PRK06175 1031711011645 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1031711011646 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1031711011647 Beta-lactamase; Region: Beta-lactamase; cl17358 1031711011648 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 1031711011649 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711011650 LysR family transcriptional regulator; Provisional; Region: PRK14997 1031711011651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011652 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1031711011653 putative effector binding pocket; other site 1031711011654 putative dimerization interface [polypeptide binding]; other site 1031711011655 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 1031711011656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711011657 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 1031711011658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 1031711011659 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1031711011660 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1031711011661 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1031711011662 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1031711011663 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711011664 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 1031711011665 non-specific DNA binding site [nucleotide binding]; other site 1031711011666 salt bridge; other site 1031711011667 sequence-specific DNA binding site [nucleotide binding]; other site 1031711011668 PGDYG protein; Region: PGDYG; pfam14083 1031711011669 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 1031711011670 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711011671 active site 1031711011672 metal binding site [ion binding]; metal-binding site 1031711011673 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1031711011674 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1031711011675 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1031711011676 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1031711011677 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 1031711011678 homotrimer interaction site [polypeptide binding]; other site 1031711011679 putative active site [active] 1031711011680 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 1031711011681 active site 1031711011682 catalytic triad [active] 1031711011683 oxyanion hole [active] 1031711011684 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1031711011685 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711011686 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1031711011687 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1031711011688 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1031711011689 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1031711011690 Predicted transcriptional regulators [Transcription]; Region: COG1510 1031711011691 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 1031711011692 dimerization interface [polypeptide binding]; other site 1031711011693 putative DNA binding site [nucleotide binding]; other site 1031711011694 putative Zn2+ binding site [ion binding]; other site 1031711011695 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1031711011696 Predicted dehydrogenase [General function prediction only]; Region: COG5322 1031711011697 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1031711011698 NAD(P) binding pocket [chemical binding]; other site 1031711011699 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1031711011700 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 1031711011701 inhibitor-cofactor binding pocket; inhibition site 1031711011702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711011703 catalytic residue [active] 1031711011704 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1031711011705 classical (c) SDRs; Region: SDR_c; cd05233 1031711011706 NAD(P) binding site [chemical binding]; other site 1031711011707 active site 1031711011708 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1031711011709 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1031711011710 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1031711011711 BNR repeat-like domain; Region: BNR_2; pfam13088 1031711011712 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1031711011713 Na binding site [ion binding]; other site 1031711011714 Protein of unknown function, DUF1537; Region: DUF1537; pfam07005 1031711011715 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1031711011716 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1031711011717 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1031711011718 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1031711011719 putative active site [active] 1031711011720 metal binding site [ion binding]; metal-binding site 1031711011721 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1031711011722 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1031711011723 inhibitor site; inhibition site 1031711011724 active site 1031711011725 dimer interface [polypeptide binding]; other site 1031711011726 catalytic residue [active] 1031711011727 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711011728 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711011729 DoxX-like family; Region: DoxX_2; pfam13564 1031711011730 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 1031711011731 dimerization interface [polypeptide binding]; other site 1031711011732 active site 1031711011733 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1031711011734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711011735 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1031711011736 dimerization interface [polypeptide binding]; other site 1031711011737 substrate binding pocket [chemical binding]; other site 1031711011738 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1031711011739 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1031711011740 aspartate aminotransferase; Provisional; Region: PRK05764 1031711011741 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 1031711011742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711011743 homodimer interface [polypeptide binding]; other site 1031711011744 catalytic residue [active] 1031711011745 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1031711011746 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_2; cd07253 1031711011747 dimer interface [polypeptide binding]; other site 1031711011748 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711011749 metal binding site [ion binding]; metal-binding site 1031711011750 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1031711011751 Transposase; Region: HTH_Tnp_1; cl17663 1031711011752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1031711011753 IS2 transposase TnpB; Reviewed; Region: PRK09409 1031711011754 Integrase core domain; Region: rve; pfam00665 1031711011755 Integrase core domain; Region: rve_3; pfam13683 1031711011756 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1031711011757 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1031711011758 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 1031711011759 putative active site [active] 1031711011760 catalytic site [active] 1031711011761 putative metal binding site [ion binding]; other site 1031711011762 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1031711011763 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1031711011764 Isopentenyl transferase; Region: IPT; pfam01745 1031711011765 PAS domain; Region: PAS_9; pfam13426 1031711011766 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 1031711011767 putative active site [active] 1031711011768 heme pocket [chemical binding]; other site 1031711011769 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1031711011770 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711011771 dimer interface [polypeptide binding]; other site 1031711011772 putative CheW interface [polypeptide binding]; other site 1031711011773 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1031711011774 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 1031711011775 putative substrate translocation pore; other site 1031711011776 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1031711011777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1031711011778 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1031711011779 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1031711011780 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1031711011781 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1031711011782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711011783 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1031711011784 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 1031711011785 [4Fe-4S] binding site [ion binding]; other site 1031711011786 molybdopterin cofactor binding site; other site 1031711011787 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 1031711011788 molybdopterin cofactor binding site; other site 1031711011789 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1031711011790 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711011791 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1031711011792 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711011793 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711011794 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711011795 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 1031711011796 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711011797 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711011798 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1031711011799 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1031711011800 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711011801 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711011802 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711011803 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711011804 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1031711011805 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1031711011806 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1031711011807 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1031711011808 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1031711011809 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 1031711011810 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 1031711011811 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1031711011812 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711011813 putative active site [active] 1031711011814 catalytic site [active] 1031711011815 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1031711011816 putative active site [active] 1031711011817 catalytic site [active] 1031711011818 Predicted small secreted protein [Function unknown]; Region: COG5510 1031711011819 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1031711011820 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 1031711011821 dimerization interface [polypeptide binding]; other site 1031711011822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711011823 dimer interface [polypeptide binding]; other site 1031711011824 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1031711011825 putative CheW interface [polypeptide binding]; other site 1031711011826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711011827 metal binding site [ion binding]; metal-binding site 1031711011828 active site 1031711011829 I-site; other site 1031711011830 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 1031711011831 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1031711011832 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1031711011833 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1031711011834 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1031711011835 PilZ domain; Region: PilZ; pfam07238 1031711011836 PAS domain S-box; Region: sensory_box; TIGR00229 1031711011837 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 1031711011838 putative active site [active] 1031711011839 heme pocket [chemical binding]; other site 1031711011840 PAS fold; Region: PAS_3; pfam08447 1031711011841 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 1031711011842 putative active site [active] 1031711011843 heme pocket [chemical binding]; other site 1031711011844 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711011845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711011846 metal binding site [ion binding]; metal-binding site 1031711011847 active site 1031711011848 I-site; other site 1031711011849 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1031711011850 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711011851 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1031711011852 Protein export membrane protein; Region: SecD_SecF; cl14618 1031711011853 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1031711011854 Protein export membrane protein; Region: SecD_SecF; cl14618 1031711011855 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711011856 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711011857 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711011858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711011859 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 1031711011860 active site 1031711011861 phosphorylation site [posttranslational modification] 1031711011862 intermolecular recognition site; other site 1031711011863 dimerization interface [polypeptide binding]; other site 1031711011864 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 1031711011865 DNA binding site [nucleotide binding] 1031711011866 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711011867 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 1031711011868 dimerization interface [polypeptide binding]; other site 1031711011869 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 1031711011870 dimer interface [polypeptide binding]; other site 1031711011871 phosphorylation site [posttranslational modification] 1031711011872 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 1031711011873 ATP binding site [chemical binding]; other site 1031711011874 Mg2+ binding site [ion binding]; other site 1031711011875 G-X-G motif; other site 1031711011876 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1031711011877 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1031711011878 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1031711011879 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1031711011880 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711011881 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 1031711011882 DNA binding residues [nucleotide binding] 1031711011883 dimerization interface [polypeptide binding]; other site 1031711011884 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1031711011885 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1031711011886 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1031711011887 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1031711011888 active site 1031711011889 intersubunit interface [polypeptide binding]; other site 1031711011890 catalytic residue [active] 1031711011891 GntP family permease; Region: GntP_permease; pfam02447 1031711011892 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1031711011893 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 1031711011894 homotrimer interaction site [polypeptide binding]; other site 1031711011895 putative active site [active] 1031711011896 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1031711011897 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 1031711011898 active site 1031711011899 putative substrate binding pocket [chemical binding]; other site 1031711011900 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 1031711011901 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1031711011902 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1031711011903 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1031711011904 putative active site [active] 1031711011905 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1031711011906 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1031711011907 dimer interface [polypeptide binding]; other site 1031711011908 active site 1031711011909 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711011910 substrate binding site [chemical binding]; other site 1031711011911 catalytic residue [active] 1031711011912 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1031711011913 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 1031711011914 substrate binding site [chemical binding]; other site 1031711011915 ATP binding site [chemical binding]; other site 1031711011916 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1031711011917 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 1031711011918 putative active site [active] 1031711011919 heme pocket [chemical binding]; other site 1031711011920 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 1031711011921 dimer interface [polypeptide binding]; other site 1031711011922 phosphorylation site [posttranslational modification] 1031711011923 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 1031711011924 ATP binding site [chemical binding]; other site 1031711011925 Mg2+ binding site [ion binding]; other site 1031711011926 G-X-G motif; other site 1031711011927 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1031711011928 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 1031711011929 active site 1031711011930 phosphorylation site [posttranslational modification] 1031711011931 intermolecular recognition site; other site 1031711011932 dimerization interface [polypeptide binding]; other site 1031711011933 H+ Antiporter protein; Region: 2A0121; TIGR00900 1031711011934 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 1031711011935 putative substrate translocation pore; other site 1031711011936 Dodecin; Region: Dodecin; pfam07311 1031711011937 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1031711011938 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1031711011939 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1031711011940 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1031711011941 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1031711011942 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 1031711011943 Transporter associated domain; Region: CorC_HlyC; pfam03471 1031711011944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 1031711011945 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1031711011946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711011947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711011948 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 1031711011949 dimerization interface [polypeptide binding]; other site 1031711011950 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 1031711011951 dimer interface [polypeptide binding]; other site 1031711011952 phosphorylation site [posttranslational modification] 1031711011953 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 1031711011954 ATP binding site [chemical binding]; other site 1031711011955 Mg2+ binding site [ion binding]; other site 1031711011956 G-X-G motif; other site 1031711011957 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1031711011958 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 1031711011959 active site 1031711011960 phosphorylation site [posttranslational modification] 1031711011961 intermolecular recognition site; other site 1031711011962 dimerization interface [polypeptide binding]; other site 1031711011963 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 1031711011964 DNA binding site [nucleotide binding] 1031711011965 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1031711011966 dimer interface [polypeptide binding]; other site 1031711011967 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 1031711011968 Ligand Binding Site [chemical binding]; other site 1031711011969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1031711011970 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1031711011971 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711011972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711011973 PAS domain S-box; Region: sensory_box; TIGR00229 1031711011974 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1031711011975 PAS domain S-box; Region: sensory_box; TIGR00229 1031711011976 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 1031711011977 putative active site [active] 1031711011978 heme pocket [chemical binding]; other site 1031711011979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711011980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711011981 metal binding site [ion binding]; metal-binding site 1031711011982 active site 1031711011983 I-site; other site 1031711011984 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 1031711011985 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1031711011986 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1031711011987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711011988 Walker A/P-loop; other site 1031711011989 ATP binding site [chemical binding]; other site 1031711011990 ABC transporter; Region: ABC_tran; pfam00005 1031711011991 Q-loop/lid; other site 1031711011992 ABC transporter signature motif; other site 1031711011993 Walker B; other site 1031711011994 D-loop; other site 1031711011995 H-loop/switch region; other site 1031711011996 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1031711011997 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 1031711011998 putative PBP binding loops; other site 1031711011999 dimer interface [polypeptide binding]; other site 1031711012000 ABC-ATPase subunit interface; other site 1031711012001 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1031711012002 glutaminase; Provisional; Region: PRK00971 1031711012003 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711012004 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 1031711012005 DNA binding residues [nucleotide binding] 1031711012006 dimerization interface [polypeptide binding]; other site 1031711012007 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711012008 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 1031711012009 DNA binding residues [nucleotide binding] 1031711012010 dimerization interface [polypeptide binding]; other site 1031711012011 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1031711012012 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 1031711012013 substrate binding pocket [chemical binding]; other site 1031711012014 membrane-bound complex binding site; other site 1031711012015 hinge residues; other site 1031711012016 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1031711012017 nudix motif; other site 1031711012018 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 1031711012019 dimerization interface [polypeptide binding]; other site 1031711012020 putative DNA binding site [nucleotide binding]; other site 1031711012021 putative Zn2+ binding site [ion binding]; other site 1031711012022 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_20; cd07254 1031711012023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711012024 putative metal binding site [ion binding]; other site 1031711012025 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1031711012026 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1031711012027 active site 1031711012028 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 1031711012029 Asn-Pro-Ala signature motifs; other site 1031711012030 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1031711012031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012032 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 1031711012033 dimerization interface [polypeptide binding]; other site 1031711012034 Lysine efflux permease [General function prediction only]; Region: COG1279 1031711012035 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711012036 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711012037 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711012038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711012039 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711012040 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711012041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012043 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1031711012044 putative effector binding pocket; other site 1031711012045 putative dimerization interface [polypeptide binding]; other site 1031711012046 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1031711012047 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 1031711012048 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711012049 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1031711012050 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 1031711012051 Uncharacterized conserved protein [Function unknown]; Region: COG1656 1031711012052 Protein of unknown function DUF82; Region: DUF82; pfam01927 1031711012053 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1031711012054 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1031711012055 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1031711012056 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711012057 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 1031711012058 putative DNA binding site [nucleotide binding]; other site 1031711012059 putative Zn2+ binding site [ion binding]; other site 1031711012060 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1031711012061 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1031711012062 active site 1031711012063 homotetramer interface [polypeptide binding]; other site 1031711012064 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 1031711012065 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1031711012066 active site 1031711012067 motif I; other site 1031711012068 motif II; other site 1031711012069 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1031711012070 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 1031711012071 active site 1031711012072 Int/Topo IB signature motif; other site 1031711012073 catalytic residues [active] 1031711012074 DNA binding site [nucleotide binding] 1031711012075 UDP-glucose 4-epimerase; Region: PLN02240 1031711012076 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1031711012077 NAD binding site [chemical binding]; other site 1031711012078 homodimer interface [polypeptide binding]; other site 1031711012079 active site 1031711012080 substrate binding site [chemical binding]; other site 1031711012081 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 1031711012082 PAS fold; Region: PAS_3; pfam08447 1031711012083 putative active site [active] 1031711012084 heme pocket [chemical binding]; other site 1031711012085 Cache domain; Region: Cache_2; pfam08269 1031711012086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711012087 dimer interface [polypeptide binding]; other site 1031711012088 putative CheW interface [polypeptide binding]; other site 1031711012089 H-NS histone family; Region: Histone_HNS; pfam00816 1031711012090 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711012091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711012092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711012093 metal binding site [ion binding]; metal-binding site 1031711012094 active site 1031711012095 I-site; other site 1031711012096 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 1031711012097 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711012098 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 1031711012099 DNA binding residues [nucleotide binding] 1031711012100 dimerization interface [polypeptide binding]; other site 1031711012101 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711012102 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711012103 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 1031711012104 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1031711012105 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1031711012106 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1031711012107 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1031711012108 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1031711012109 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711012110 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 1031711012111 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1031711012112 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1031711012113 ATP binding site [chemical binding]; other site 1031711012114 Walker A motif; other site 1031711012115 hexamer interface [polypeptide binding]; other site 1031711012116 Walker B motif; other site 1031711012117 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1031711012118 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711012119 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1031711012120 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1031711012121 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 1031711012122 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 1031711012123 binding surface 1031711012124 TPR motif; other site 1031711012125 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 1031711012126 binding surface 1031711012127 TPR motif; other site 1031711012128 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1031711012129 Predicted membrane protein [Function unknown]; Region: COG4655 1031711012130 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1031711012131 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 1031711012132 Walker A motif; other site 1031711012133 ATP binding site [chemical binding]; other site 1031711012134 Walker B motif; other site 1031711012135 arginine finger; other site 1031711012136 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711012137 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1031711012138 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1031711012139 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711012140 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1031711012141 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1031711012142 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1031711012143 Cytochrome P450; Region: p450; cl12078 1031711012144 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 1031711012145 dimerization interface [polypeptide binding]; other site 1031711012146 putative DNA binding site [nucleotide binding]; other site 1031711012147 putative Zn2+ binding site [ion binding]; other site 1031711012148 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1031711012149 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1031711012150 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1031711012151 RTX toxin acyltransferase family; Region: HlyC; cl01131 1031711012152 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1031711012153 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1031711012154 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1031711012155 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1031711012156 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 1031711012157 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1031711012158 DDE superfamily endonuclease; Region: DDE_4; cl17710 1031711012159 transposase/IS protein; Provisional; Region: PRK09183 1031711012160 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711012161 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 1031711012162 Walker A motif; other site 1031711012163 ATP binding site [chemical binding]; other site 1031711012164 Walker B motif; other site 1031711012165 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 1031711012166 DNA-binding interface [nucleotide binding]; DNA binding site 1031711012167 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711012168 Integrase core domain; Region: rve; pfam00665 1031711012169 AAA domain; Region: AAA_33; pfam13671 1031711012170 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 1031711012171 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711012172 putative substrate translocation pore; other site 1031711012173 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 1031711012174 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1031711012175 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1031711012176 catalytic site [active] 1031711012177 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1031711012178 The adenylation domain (A domain) of a family of nonribosomal peptide synthetases (NRPSs) synthesizing toxins and antitumor agents; Region: A_NRPS_TubE_like; cd05906 1031711012179 acyl-activating enzyme (AAE) consensus motif; other site 1031711012180 putative AMP binding site [chemical binding]; other site 1031711012181 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711012182 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1031711012183 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1031711012184 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1031711012185 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1031711012186 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1031711012187 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1031711012188 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1031711012189 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1031711012190 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1031711012191 FAD binding pocket [chemical binding]; other site 1031711012192 FAD binding motif [chemical binding]; other site 1031711012193 phosphate binding motif [ion binding]; other site 1031711012194 beta-alpha-beta structure motif; other site 1031711012195 NAD(p) ribose binding residues [chemical binding]; other site 1031711012196 NAD binding pocket [chemical binding]; other site 1031711012197 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1031711012198 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 1031711012199 catalytic loop [active] 1031711012200 iron binding site [ion binding]; other site 1031711012201 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1031711012202 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 1031711012203 BT1 family; Region: BT1; pfam03092 1031711012204 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 1031711012205 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 1031711012206 CoenzymeA binding site [chemical binding]; other site 1031711012207 subunit interaction site [polypeptide binding]; other site 1031711012208 PHB binding site; other site 1031711012209 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711012210 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711012211 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1031711012212 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; cd02933 1031711012213 FMN binding site [chemical binding]; other site 1031711012214 active site 1031711012215 substrate binding site [chemical binding]; other site 1031711012216 catalytic residue [active] 1031711012217 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1031711012218 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1031711012219 NAD binding site [chemical binding]; other site 1031711012220 substrate binding site [chemical binding]; other site 1031711012221 putative active site [active] 1031711012222 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1031711012223 Predicted transcriptional regulators [Transcription]; Region: COG1733 1031711012224 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1031711012225 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1031711012226 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1031711012227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711012228 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711012229 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1031711012230 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 1031711012231 active site residue [active] 1031711012232 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 1031711012233 active site residue [active] 1031711012234 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 1031711012235 active site residue [active] 1031711012236 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 1031711012237 active site residue [active] 1031711012238 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1031711012239 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 1031711012240 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711012241 catalytic residue [active] 1031711012242 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1031711012243 putative FMN binding site [chemical binding]; other site 1031711012244 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1031711012245 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1031711012246 catalytic triad [active] 1031711012247 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1031711012248 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 1031711012249 homodimer interface [polypeptide binding]; other site 1031711012250 Walker A motif; other site 1031711012251 ATP binding site [chemical binding]; other site 1031711012252 hydroxycobalamin binding site [chemical binding]; other site 1031711012253 Walker B motif; other site 1031711012254 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1031711012255 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1031711012256 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1031711012257 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1031711012258 active site 1031711012259 SAM binding site [chemical binding]; other site 1031711012260 homodimer interface [polypeptide binding]; other site 1031711012261 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1031711012262 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 1031711012263 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1031711012264 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1031711012265 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 1031711012266 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1031711012267 active site 1031711012268 SAM binding site [chemical binding]; other site 1031711012269 homodimer interface [polypeptide binding]; other site 1031711012270 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1031711012271 active site 1031711012272 SAM binding site [chemical binding]; other site 1031711012273 homodimer interface [polypeptide binding]; other site 1031711012274 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 1031711012275 similar to 3-truncated hypothetical precorrin isomerase transmembrane protein; RSPO_m00971 1031711012276 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1031711012277 active site 1031711012278 putative homodimer interface [polypeptide binding]; other site 1031711012279 SAM binding site [chemical binding]; other site 1031711012280 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 1031711012281 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1031711012282 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 1031711012283 metal ion-dependent adhesion site (MIDAS); other site 1031711012284 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1031711012285 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1031711012286 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1031711012287 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1031711012288 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1031711012289 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 1031711012290 dimer interface [polypeptide binding]; other site 1031711012291 [2Fe-2S] cluster binding site [ion binding]; other site 1031711012292 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1031711012293 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1031711012294 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1031711012295 Walker A/P-loop; other site 1031711012296 ATP binding site [chemical binding]; other site 1031711012297 Q-loop/lid; other site 1031711012298 ABC transporter signature motif; other site 1031711012299 Walker B; other site 1031711012300 D-loop; other site 1031711012301 H-loop/switch region; other site 1031711012302 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1031711012303 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 1031711012304 dimer interface [polypeptide binding]; other site 1031711012305 conserved gate region; other site 1031711012306 putative PBP binding loops; other site 1031711012307 ABC-ATPase subunit interface; other site 1031711012308 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 1031711012309 dimer interface [polypeptide binding]; other site 1031711012310 conserved gate region; other site 1031711012311 putative PBP binding loops; other site 1031711012312 ABC-ATPase subunit interface; other site 1031711012313 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 1031711012314 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711012315 substrate binding pocket [chemical binding]; other site 1031711012316 membrane-bound complex binding site; other site 1031711012317 hinge residues; other site 1031711012318 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1031711012319 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1031711012320 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1031711012321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1031711012322 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 1031711012323 dimerization interface [polypeptide binding]; other site 1031711012324 putative DNA binding site [nucleotide binding]; other site 1031711012325 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711012326 putative Zn2+ binding site [ion binding]; other site 1031711012327 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711012328 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1031711012329 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1031711012330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711012331 catalytic residue [active] 1031711012332 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1031711012333 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 1031711012334 substrate binding site [chemical binding]; other site 1031711012335 oxyanion hole (OAH) forming residues; other site 1031711012336 trimer interface [polypeptide binding]; other site 1031711012337 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1031711012338 enoyl-CoA hydratase; Provisional; Region: PRK09076 1031711012339 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 1031711012340 substrate binding site [chemical binding]; other site 1031711012341 oxyanion hole (OAH) forming residues; other site 1031711012342 trimer interface [polypeptide binding]; other site 1031711012343 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1031711012344 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1031711012345 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1031711012346 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1031711012347 tetrameric interface [polypeptide binding]; other site 1031711012348 NAD binding site [chemical binding]; other site 1031711012349 catalytic residues [active] 1031711012350 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1031711012351 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 1031711012352 active site 1031711012353 acyl-activating enzyme (AAE) consensus motif; other site 1031711012354 putative CoA binding site [chemical binding]; other site 1031711012355 AMP binding site [chemical binding]; other site 1031711012356 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711012357 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711012358 active site 1031711012359 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1031711012360 Helix-turn-helix domain; Region: HTH_18; pfam12833 1031711012361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711012362 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1031711012363 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1031711012364 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1031711012365 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1031711012366 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 1031711012367 putative substrate translocation pore; other site 1031711012368 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 1031711012369 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711012370 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 1031711012371 putative DNA binding site [nucleotide binding]; other site 1031711012372 putative Zn2+ binding site [ion binding]; other site 1031711012373 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1031711012374 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1031711012375 oligomer interface [polypeptide binding]; other site 1031711012376 metal binding site [ion binding]; metal-binding site 1031711012377 metal binding site [ion binding]; metal-binding site 1031711012378 putative Cl binding site [ion binding]; other site 1031711012379 basic sphincter; other site 1031711012380 hydrophobic gate; other site 1031711012381 periplasmic entrance; other site 1031711012382 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1031711012383 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1031711012384 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 1031711012385 Uncharacterized conserved protein [Function unknown]; Region: COG5495 1031711012386 Rossmann-like domain; Region: Rossmann-like; pfam10727 1031711012387 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1031711012388 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711012389 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; cl15762 1031711012390 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 1031711012391 Leucine-rich repeats; other site 1031711012392 Substrate binding site [chemical binding]; other site 1031711012393 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 1031711012394 Leucine-rich repeats; other site 1031711012395 Substrate binding site [chemical binding]; other site 1031711012396 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 1031711012397 Leucine-rich repeats; other site 1031711012398 Substrate binding site [chemical binding]; other site 1031711012399 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 1031711012400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 1031711012401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 1031711012402 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1031711012403 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 1031711012404 THF binding site; other site 1031711012405 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 1031711012406 substrate binding site [chemical binding]; other site 1031711012407 THF binding site; other site 1031711012408 zinc-binding site [ion binding]; other site 1031711012409 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1031711012410 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 1031711012411 putative DNA binding site [nucleotide binding]; other site 1031711012412 putative Zn2+ binding site [ion binding]; other site 1031711012413 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1031711012414 putative dimerization interface [polypeptide binding]; other site 1031711012415 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1031711012416 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1031711012417 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1031711012418 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1031711012419 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1031711012420 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711012421 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 1031711012422 active site 1031711012423 ribulose/triose binding site [chemical binding]; other site 1031711012424 phosphate binding site [ion binding]; other site 1031711012425 substrate (anthranilate) binding pocket [chemical binding]; other site 1031711012426 product (indole) binding pocket [chemical binding]; other site 1031711012427 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1031711012428 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1031711012429 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1031711012430 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 1031711012431 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1031711012432 FMN binding site [chemical binding]; other site 1031711012433 active site 1031711012434 homodimer interface [polypeptide binding]; other site 1031711012435 putative catalytic residue [active] 1031711012436 4Fe-4S cluster binding site [ion binding]; other site 1031711012437 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1031711012438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1031711012439 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1031711012440 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711012441 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 1031711012442 B3/4 domain; Region: B3_4; pfam03483 1031711012443 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711012444 EamA-like transporter family; Region: EamA; pfam00892 1031711012445 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1031711012446 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711012447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012449 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1031711012450 putative effector binding pocket; other site 1031711012451 dimerization interface [polypeptide binding]; other site 1031711012452 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711012453 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711012454 active site 1031711012455 Predicted small integral membrane protein [Function unknown]; Region: COG5472 1031711012456 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1031711012457 fumarylacetoacetase; Region: PLN02856 1031711012458 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1031711012459 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1031711012460 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1031711012461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012463 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 1031711012464 substrate binding pocket [chemical binding]; other site 1031711012465 dimerization interface [polypeptide binding]; other site 1031711012466 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 1031711012467 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1031711012468 hypothetical protein; Reviewed; Region: PRK09588 1031711012469 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 1031711012470 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 1031711012471 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 1031711012472 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711012473 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1031711012474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1031711012475 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1031711012476 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1031711012477 Bacterial transcriptional regulator; Region: IclR; pfam01614 1031711012478 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; cl00454 1031711012479 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 1031711012480 TM-ABC transporter signature motif; other site 1031711012481 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1031711012482 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 1031711012483 TM-ABC transporter signature motif; other site 1031711012484 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1031711012485 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1031711012486 Walker A/P-loop; other site 1031711012487 ATP binding site [chemical binding]; other site 1031711012488 Q-loop/lid; other site 1031711012489 ABC transporter signature motif; other site 1031711012490 Walker B; other site 1031711012491 D-loop; other site 1031711012492 H-loop/switch region; other site 1031711012493 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1031711012494 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1031711012495 Walker A/P-loop; other site 1031711012496 ATP binding site [chemical binding]; other site 1031711012497 Q-loop/lid; other site 1031711012498 ABC transporter signature motif; other site 1031711012499 Walker B; other site 1031711012500 D-loop; other site 1031711012501 H-loop/switch region; other site 1031711012502 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1031711012503 Cytochrome P450; Region: p450; cl12078 1031711012504 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711012505 EamA-like transporter family; Region: EamA; pfam00892 1031711012506 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 1031711012507 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1031711012508 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 1031711012509 putative acetyltransferase; Provisional; Region: PRK03624 1031711012510 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1031711012511 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 1031711012512 homodimer interface [polypeptide binding]; other site 1031711012513 substrate-cofactor binding pocket; other site 1031711012514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711012515 catalytic residue [active] 1031711012516 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1031711012517 FMN-binding domain; Region: FMN_bind; pfam04205 1031711012518 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1031711012519 nucleophilic elbow; other site 1031711012520 catalytic triad; other site 1031711012521 L-aspartate dehydrogenase; Provisional; Region: PRK13303 1031711012522 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1031711012523 Domain of unknown function DUF108; Region: DUF108; pfam01958 1031711012524 Uncharacterized conserved protein [Function unknown]; Region: COG3542 1031711012525 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1031711012526 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1031711012527 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1031711012528 active site 1031711012529 homotetramer interface [polypeptide binding]; other site 1031711012530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711012531 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711012532 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1031711012533 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1031711012534 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1031711012535 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 1031711012536 TPR motif; other site 1031711012537 binding surface 1031711012538 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1031711012539 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1031711012540 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1031711012541 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 1031711012542 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 1031711012543 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1031711012544 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1031711012545 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1031711012546 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1031711012547 Clp amino terminal domain; Region: Clp_N; pfam02861 1031711012548 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 1031711012549 Walker A motif; other site 1031711012550 ATP binding site [chemical binding]; other site 1031711012551 Walker B motif; other site 1031711012552 arginine finger; other site 1031711012553 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 1031711012554 Walker A motif; other site 1031711012555 ATP binding site [chemical binding]; other site 1031711012556 Walker B motif; other site 1031711012557 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1031711012558 potential frameshift: common BLAST hit: gi|17548971|ref|NP_522311.1| VGR-related protein 1031711012559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711012560 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711012561 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711012562 similar to 3-truncated hypothetical chaperone clpb protein; RSPO_m01080 1031711012563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1031711012564 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1031711012565 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1031711012566 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1031711012567 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1031711012568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1031711012569 ligand binding site [chemical binding]; other site 1031711012570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 1031711012571 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1031711012572 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1031711012573 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1031711012574 PAAR motif; Region: PAAR_motif; pfam05488 1031711012575 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1031711012576 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1031711012577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1031711012578 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1031711012579 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1031711012580 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1031711012581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1031711012582 aspartate aminotransferase; Provisional; Region: PRK06108 1031711012583 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 1031711012584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711012585 homodimer interface [polypeptide binding]; other site 1031711012586 catalytic residue [active] 1031711012587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012589 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 1031711012590 dimerization interface [polypeptide binding]; other site 1031711012591 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1031711012592 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1031711012593 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1031711012594 DNA Polymerase Y-family; Region: PolY_like; cd03468 1031711012595 active site 1031711012596 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1031711012597 DNA binding site [nucleotide binding] 1031711012598 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1031711012599 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1031711012600 putative active site [active] 1031711012601 putative PHP Thumb interface [polypeptide binding]; other site 1031711012602 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 1031711012603 generic binding surface II; other site 1031711012604 generic binding surface I; other site 1031711012605 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 1031711012606 non-specific DNA binding site [nucleotide binding]; other site 1031711012607 salt bridge; other site 1031711012608 sequence-specific DNA binding site [nucleotide binding]; other site 1031711012609 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 1031711012610 transmembrane helices; other site 1031711012611 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1031711012612 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1031711012613 elongation factor G; Reviewed; Region: PRK00007 1031711012614 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1031711012615 G1 box; other site 1031711012616 putative GEF interaction site [polypeptide binding]; other site 1031711012617 GTP/Mg2+ binding site [chemical binding]; other site 1031711012618 Switch I region; other site 1031711012619 G2 box; other site 1031711012620 G3 box; other site 1031711012621 Switch II region; other site 1031711012622 G4 box; other site 1031711012623 G5 box; other site 1031711012624 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 1031711012625 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 1031711012626 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 1031711012627 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1031711012628 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 1031711012629 ligand binding site [chemical binding]; other site 1031711012630 flexible hinge region; other site 1031711012631 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 1031711012632 putative switch regulator; other site 1031711012633 non-specific DNA interactions [nucleotide binding]; other site 1031711012634 DNA binding site [nucleotide binding] 1031711012635 sequence specific DNA binding site [nucleotide binding]; other site 1031711012636 putative cAMP binding site [chemical binding]; other site 1031711012637 Predicted membrane protein [Function unknown]; Region: COG4539 1031711012638 Ferredoxin [Energy production and conversion]; Region: COG1146 1031711012639 4Fe-4S binding domain; Region: Fer4; pfam00037 1031711012640 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1031711012641 Peptidase M30; Region: Peptidase_M30; pfam10460 1031711012642 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 1031711012643 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1031711012644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012645 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 1031711012646 dimerization interface [polypeptide binding]; other site 1031711012647 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1031711012648 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711012649 Walker A/P-loop; other site 1031711012650 ATP binding site [chemical binding]; other site 1031711012651 Q-loop/lid; other site 1031711012652 ABC transporter signature motif; other site 1031711012653 Walker B; other site 1031711012654 D-loop; other site 1031711012655 H-loop/switch region; other site 1031711012656 TOBE domain; Region: TOBE_2; pfam08402 1031711012657 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1031711012658 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 1031711012659 dimer interface [polypeptide binding]; other site 1031711012660 conserved gate region; other site 1031711012661 putative PBP binding loops; other site 1031711012662 ABC-ATPase subunit interface; other site 1031711012663 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 1031711012664 dimer interface [polypeptide binding]; other site 1031711012665 conserved gate region; other site 1031711012666 putative PBP binding loops; other site 1031711012667 ABC-ATPase subunit interface; other site 1031711012668 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1031711012669 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 1031711012670 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1031711012671 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 1031711012672 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1031711012673 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1031711012674 conserved cys residue [active] 1031711012675 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1031711012676 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1031711012677 gamma subunit interface [polypeptide binding]; other site 1031711012678 epsilon subunit interface [polypeptide binding]; other site 1031711012679 LBP interface [polypeptide binding]; other site 1031711012680 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1031711012681 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711012682 N-terminal plug; other site 1031711012683 ligand-binding site [chemical binding]; other site 1031711012684 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1031711012685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711012686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711012687 metal binding site [ion binding]; metal-binding site 1031711012688 active site 1031711012689 I-site; other site 1031711012690 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 1031711012691 malate:quinone oxidoreductase; Validated; Region: PRK05257 1031711012692 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1031711012693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1031711012694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711012695 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711012696 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1031711012697 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1031711012698 Protein export membrane protein; Region: SecD_SecF; cl14618 1031711012699 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711012700 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711012701 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711012702 EamA-like transporter family; Region: EamA; pfam00892 1031711012703 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1031711012704 AvrPphF-ORF-2; Region: AvrPphF-ORF-2; pfam09143 1031711012705 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1031711012706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012707 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 1031711012708 putative dimerization interface [polypeptide binding]; other site 1031711012709 putative substrate binding pocket [chemical binding]; other site 1031711012710 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1031711012711 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 1031711012712 S-adenosylmethionine binding site [chemical binding]; other site 1031711012713 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1031711012714 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1031711012715 putative active site [active] 1031711012716 catalytic residue [active] 1031711012717 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1031711012718 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1031711012719 dimer interface [polypeptide binding]; other site 1031711012720 NADP binding site [chemical binding]; other site 1031711012721 catalytic residues [active] 1031711012722 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 1031711012723 D-galactonate transporter; Region: 2A0114; TIGR00893 1031711012724 putative substrate translocation pore; other site 1031711012725 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1031711012726 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1031711012727 active site 1031711012728 tetramer interface [polypeptide binding]; other site 1031711012729 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1031711012730 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1031711012731 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1031711012732 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1031711012733 extended (e) SDRs; Region: SDR_e; cd08946 1031711012734 NAD(P) binding site [chemical binding]; other site 1031711012735 active site 1031711012736 substrate binding site [chemical binding]; other site 1031711012737 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1031711012738 Strictosidine synthase; Region: Str_synth; pfam03088 1031711012739 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1031711012740 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1031711012741 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 1031711012742 D-galactonate transporter; Region: 2A0114; TIGR00893 1031711012743 putative substrate translocation pore; other site 1031711012744 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 1031711012745 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711012746 active site 1031711012747 nucleotide binding site [chemical binding]; other site 1031711012748 HIGH motif; other site 1031711012749 KMSKS motif; other site 1031711012750 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1031711012751 nudix motif; other site 1031711012752 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1031711012753 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1031711012754 active site 1031711012755 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711012756 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 1031711012757 dimerization interface [polypeptide binding]; other site 1031711012758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711012759 dimer interface [polypeptide binding]; other site 1031711012760 putative CheW interface [polypeptide binding]; other site 1031711012761 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1031711012762 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 1031711012763 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1031711012764 catalytic residue [active] 1031711012765 Leucine rich repeat; Region: LRR_8; pfam13855 1031711012766 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 1031711012767 Leucine-rich repeats; other site 1031711012768 Leucine rich repeat; Region: LRR_8; pfam13855 1031711012769 Substrate binding site [chemical binding]; other site 1031711012770 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1031711012771 Predicted transcriptional regulators [Transcription]; Region: COG1733 1031711012772 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1031711012773 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1031711012774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711012775 NAD(P) binding site [chemical binding]; other site 1031711012776 active site 1031711012777 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 1031711012778 RNA polymerase sigma factor; Provisional; Region: PRK11924 1031711012779 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711012780 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 1031711012781 DNA binding residues [nucleotide binding] 1031711012782 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1031711012783 FecR protein; Region: FecR; pfam04773 1031711012784 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711012785 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 1031711012786 DNA binding residues [nucleotide binding] 1031711012787 dimerization interface [polypeptide binding]; other site 1031711012788 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711012789 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 1031711012790 active site 1031711012791 phosphorylation site [posttranslational modification] 1031711012792 intermolecular recognition site; other site 1031711012793 dimerization interface [polypeptide binding]; other site 1031711012794 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 1031711012795 DNA binding site [nucleotide binding] 1031711012796 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1031711012797 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 1031711012798 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1031711012799 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1031711012800 Type III secretion protein (HpaP); Region: HpaP; cl17849 1031711012801 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 1031711012802 FHIPEP family; Region: FHIPEP; pfam00771 1031711012803 type III secretion system protein HrcU; Validated; Region: PRK09108 1031711012804 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1031711012805 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 1031711012806 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 1031711012807 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 1031711012808 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1031711012809 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 1031711012810 type III secretion system protein HrpB; Validated; Region: PRK09098 1031711012811 Flagellar assembly protein FliH; Region: FliH; pfam02108 1031711012812 type III secretion system ATPase; Provisional; Region: PRK09099 1031711012813 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1031711012814 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 1031711012815 Walker A motif/ATP binding site; other site 1031711012816 Walker B motif; other site 1031711012817 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 1031711012818 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711012819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711012820 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1031711012821 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711012822 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1031711012823 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1031711012824 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 1031711012825 Leucine-rich repeats; other site 1031711012826 Leucine rich repeat; Region: LRR_8; pfam13855 1031711012827 Substrate binding site [chemical binding]; other site 1031711012828 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1031711012829 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1031711012830 Leucine rich repeat; Region: LRR_8; pfam13855 1031711012831 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1031711012832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012834 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 1031711012835 putative substrate binding pocket [chemical binding]; other site 1031711012836 putative dimerization interface [polypeptide binding]; other site 1031711012837 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_2; cd07253 1031711012838 dimer interface [polypeptide binding]; other site 1031711012839 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1031711012840 metal binding site [ion binding]; metal-binding site 1031711012841 SnoaL-like domain; Region: SnoaL_2; pfam12680 1031711012842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711012843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711012844 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1031711012845 substrate binding pocket [chemical binding]; other site 1031711012846 dimerization interface [polypeptide binding]; other site 1031711012847 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711012848 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1031711012849 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1031711012850 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1031711012851 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1031711012852 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 1031711012853 active site 1031711012854 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 1031711012855 Interdomain contacts; other site 1031711012856 Cytokine receptor motif; other site 1031711012857 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1031711012858 SET domain; Region: SET; pfam00856 1031711012859 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1031711012860 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1031711012861 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1031711012862 putative NADP binding site [chemical binding]; other site 1031711012863 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1031711012864 active site 1031711012865 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1031711012866 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1031711012867 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1031711012868 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012869 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711012870 active site 1031711012871 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1031711012872 Cytochrome P450; Region: p450; cl12078 1031711012873 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1031711012874 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1031711012875 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1031711012876 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012877 active site 1031711012878 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1031711012879 putative NADP binding site [chemical binding]; other site 1031711012880 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1031711012881 active site 1031711012882 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711012883 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711012884 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012885 active site 1031711012886 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1031711012887 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1031711012888 putative NADP binding site [chemical binding]; other site 1031711012889 KR domain; Region: KR; pfam08659 1031711012890 active site 1031711012891 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1031711012892 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711012893 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012894 active site 1031711012895 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711012896 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711012897 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012898 active site 1031711012899 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 1031711012900 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 1031711012901 KR domain; Region: KR; pfam08659 1031711012902 putative NADP binding site [chemical binding]; other site 1031711012903 active site 1031711012904 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711012905 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012906 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711012907 active site 1031711012908 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711012909 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1031711012910 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711012911 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1031711012912 active site 1031711012913 Condensation domain; Region: Condensation; pfam00668 1031711012914 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711012915 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1031711012916 Condensation domain; Region: Condensation; pfam00668 1031711012917 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711012918 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1031711012919 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1031711012920 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1031711012921 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1031711012922 Phage integrase protein; Region: DUF3701; pfam12482 1031711012923 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1031711012924 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1031711012925 Int/Topo IB signature motif; other site 1031711012926 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 1031711012927 phosphate acetyltransferase; Provisional; Region: PRK11890 1031711012928 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1031711012929 propionate/acetate kinase; Provisional; Region: PRK12379 1031711012930 Acetokinase family; Region: Acetate_kinase; cl17229 1031711012931 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 1031711012932 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1031711012933 NAD binding site [chemical binding]; other site 1031711012934 homotetramer interface [polypeptide binding]; other site 1031711012935 homodimer interface [polypeptide binding]; other site 1031711012936 substrate binding site [chemical binding]; other site 1031711012937 active site 1031711012938 hypothetical protein; Validated; Region: PRK09169 1031711012939 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1031711012940 synthetase active site [active] 1031711012941 NTP binding site [chemical binding]; other site 1031711012942 metal binding site [ion binding]; metal-binding site 1031711012943 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1031711012944 metal binding triad [ion binding]; metal-binding site 1031711012945 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1031711012946 similar to truncated transposase protein; RSPO_m01232 1031711012947 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1031711012948 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 1031711012949 Int/Topo IB signature motif; other site 1031711012950 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1031711012951 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; cd00598 1031711012952 active site 1031711012953 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1031711012954 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1031711012955 putative Cl- selectivity filter; other site 1031711012956 putative pore gating glutamate residue; other site 1031711012957 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 1031711012958 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1031711012959 catalytic residues [active] 1031711012960 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1031711012961 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1031711012962 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711012963 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711012964 N-terminal plug; other site 1031711012965 ligand-binding site [chemical binding]; other site 1031711012966 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 1031711012967 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711012968 putative substrate translocation pore; other site 1031711012969 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1031711012970 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1031711012971 active site 1031711012972 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711012973 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1031711012974 acyl-activating enzyme (AAE) consensus motif; other site 1031711012975 AMP binding site [chemical binding]; other site 1031711012976 active site 1031711012977 CoA binding site [chemical binding]; other site 1031711012978 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711012979 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1031711012980 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1031711012981 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1031711012982 MoaE interaction surface [polypeptide binding]; other site 1031711012983 MoeB interaction surface [polypeptide binding]; other site 1031711012984 thiocarboxylated glycine; other site 1031711012985 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1031711012986 MPN+ (JAMM) motif; other site 1031711012987 Zinc-binding site [ion binding]; other site 1031711012988 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 1031711012989 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 1031711012990 ATP binding site [chemical binding]; other site 1031711012991 substrate interface [chemical binding]; other site 1031711012992 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 1031711012993 active site residue [active] 1031711012994 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1031711012995 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 1031711012996 Part of AAA domain; Region: AAA_19; pfam13245 1031711012997 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1031711012998 AAA domain; Region: AAA_12; pfam13087 1031711012999 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1031711013000 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1031711013001 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1031711013002 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1031711013003 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1031711013004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711013005 Walker A/P-loop; other site 1031711013006 ATP binding site [chemical binding]; other site 1031711013007 Q-loop/lid; other site 1031711013008 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1031711013009 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1031711013010 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1031711013011 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1031711013012 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1031711013013 NAD(P) binding site [chemical binding]; other site 1031711013014 homodimer interface [polypeptide binding]; other site 1031711013015 substrate binding site [chemical binding]; other site 1031711013016 active site 1031711013017 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1031711013018 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 1031711013019 inhibitor-cofactor binding pocket; inhibition site 1031711013020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013021 catalytic residue [active] 1031711013022 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1031711013023 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1031711013024 putative trimer interface [polypeptide binding]; other site 1031711013025 putative CoA binding site [chemical binding]; other site 1031711013026 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1031711013027 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1031711013028 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 1031711013029 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1031711013030 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1031711013031 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1031711013032 putative NAD(P) binding site [chemical binding]; other site 1031711013033 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1031711013034 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711013035 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1031711013036 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1031711013037 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1031711013038 trimer interface [polypeptide binding]; other site 1031711013039 active site 1031711013040 substrate binding site [chemical binding]; other site 1031711013041 CoA binding site [chemical binding]; other site 1031711013042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1031711013043 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 1031711013044 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1031711013045 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1031711013046 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1031711013047 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1031711013048 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1031711013049 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1031711013050 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 1031711013051 active site 1031711013052 homodimer interface [polypeptide binding]; other site 1031711013053 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 1031711013054 Chain length determinant protein; Region: Wzz; pfam02706 1031711013055 Chain length determinant protein; Region: Wzz; cl15801 1031711013056 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1031711013057 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 1031711013058 Nucleotide binding site [chemical binding]; other site 1031711013059 P loop; other site 1031711013060 DTAP/Switch II; other site 1031711013061 Switch I; other site 1031711013062 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1031711013063 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1031711013064 active site 1031711013065 polysaccharide export protein Wza; Provisional; Region: PRK15078 1031711013066 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1031711013067 SLBB domain; Region: SLBB; pfam10531 1031711013068 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; cl15777 1031711013069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711013070 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 1031711013071 DNA binding site [nucleotide binding] 1031711013072 potential frameshift: common BLAST hit: gi|66047267|ref|YP_237108.1| cytoplasmic protein 1031711013073 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1031711013074 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1031711013075 potential frameshift: common BLAST hit: gi|300697627|ref|YP_003748288.1| AWR5 type III effector protein 1031711013076 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1031711013077 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1031711013078 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1031711013079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711013080 Walker A/P-loop; other site 1031711013081 ATP binding site [chemical binding]; other site 1031711013082 Q-loop/lid; other site 1031711013083 ABC transporter signature motif; other site 1031711013084 Walker B; other site 1031711013085 D-loop; other site 1031711013086 H-loop/switch region; other site 1031711013087 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1031711013088 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 1031711013089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1031711013090 Walker A/P-loop; other site 1031711013091 ATP binding site [chemical binding]; other site 1031711013092 Q-loop/lid; other site 1031711013093 ABC transporter signature motif; other site 1031711013094 Walker B; other site 1031711013095 D-loop; other site 1031711013096 H-loop/switch region; other site 1031711013097 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711013098 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711013099 N-terminal plug; other site 1031711013100 ligand-binding site [chemical binding]; other site 1031711013101 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711013102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711013103 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1031711013104 Condensation domain; Region: Condensation; pfam00668 1031711013105 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711013106 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1031711013107 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1031711013108 acyl-activating enzyme (AAE) consensus motif; other site 1031711013109 AMP binding site [chemical binding]; other site 1031711013110 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1031711013111 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711013112 Condensation domain; Region: Condensation; pfam00668 1031711013113 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711013114 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1031711013115 muropeptide transporter; Validated; Region: ampG; cl17669 1031711013116 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1031711013117 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1031711013118 active site 1031711013119 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1031711013120 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1031711013121 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 1031711013122 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 1031711013123 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1031711013124 NADP binding site [chemical binding]; other site 1031711013125 active site 1031711013126 Condensation domain; Region: Condensation; pfam00668 1031711013127 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1031711013128 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1031711013129 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 1031711013130 S-adenosylmethionine binding site [chemical binding]; other site 1031711013131 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1031711013132 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1031711013133 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 1031711013134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711013135 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1031711013136 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1031711013137 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1031711013138 acyl-activating enzyme (AAE) consensus motif; other site 1031711013139 active site 1031711013140 AMP binding site [chemical binding]; other site 1031711013141 substrate binding site [chemical binding]; other site 1031711013142 salicylate synthase; Region: salicyl_syn; TIGR03494 1031711013143 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1031711013144 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 1031711013145 putative ligand binding site [chemical binding]; other site 1031711013146 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1031711013147 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1031711013148 HAMP domain; Region: HAMP; pfam00672 1031711013149 dimerization interface [polypeptide binding]; other site 1031711013150 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711013151 dimer interface [polypeptide binding]; other site 1031711013152 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1031711013153 putative CheW interface [polypeptide binding]; other site 1031711013154 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1031711013155 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1031711013156 putative di-iron ligands [ion binding]; other site 1031711013157 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1031711013158 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1031711013159 succinic semialdehyde dehydrogenase; Region: PLN02278 1031711013160 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1031711013161 tetramerization interface [polypeptide binding]; other site 1031711013162 NAD(P) binding site [chemical binding]; other site 1031711013163 catalytic residues [active] 1031711013164 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1031711013165 tartrate dehydrogenase; Region: TTC; TIGR02089 1031711013166 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1031711013167 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711013168 Walker A/P-loop; other site 1031711013169 ATP binding site [chemical binding]; other site 1031711013170 Q-loop/lid; other site 1031711013171 ABC transporter signature motif; other site 1031711013172 Walker B; other site 1031711013173 D-loop; other site 1031711013174 H-loop/switch region; other site 1031711013175 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1031711013176 Walker A/P-loop; other site 1031711013177 ATP binding site [chemical binding]; other site 1031711013178 Q-loop/lid; other site 1031711013179 ABC transporter signature motif; other site 1031711013180 Walker B; other site 1031711013181 D-loop; other site 1031711013182 H-loop/switch region; other site 1031711013183 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1031711013184 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 1031711013185 dimer interface [polypeptide binding]; other site 1031711013186 conserved gate region; other site 1031711013187 ABC-ATPase subunit interface; other site 1031711013188 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1031711013189 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 1031711013190 dimer interface [polypeptide binding]; other site 1031711013191 conserved gate region; other site 1031711013192 putative PBP binding loops; other site 1031711013193 ABC-ATPase subunit interface; other site 1031711013194 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1031711013195 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_17; cd08503 1031711013196 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1031711013197 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1031711013198 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1031711013199 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1031711013200 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1031711013201 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1031711013202 NAD(P) binding site [chemical binding]; other site 1031711013203 catalytic residues [active] 1031711013204 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1031711013205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711013206 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1031711013207 Coenzyme A binding pocket [chemical binding]; other site 1031711013208 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1031711013209 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1031711013210 putative ligand binding site [chemical binding]; other site 1031711013211 NAD binding site [chemical binding]; other site 1031711013212 dimerization interface [polypeptide binding]; other site 1031711013213 catalytic site [active] 1031711013214 hypothetical protein; Provisional; Region: PRK05965 1031711013215 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 1031711013216 inhibitor-cofactor binding pocket; inhibition site 1031711013217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013218 catalytic residue [active] 1031711013219 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1031711013220 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 1031711013221 putative DNA binding site [nucleotide binding]; other site 1031711013222 putative Zn2+ binding site [ion binding]; other site 1031711013223 AsnC family; Region: AsnC_trans_reg; pfam01037 1031711013224 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1031711013225 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1031711013226 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1031711013227 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1031711013228 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1031711013229 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1031711013230 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1031711013231 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1031711013232 metal binding site [ion binding]; metal-binding site 1031711013233 putative dimer interface [polypeptide binding]; other site 1031711013234 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1031711013235 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 1031711013236 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1031711013237 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1031711013238 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1031711013239 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1031711013240 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1031711013241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1031711013242 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1031711013243 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1031711013244 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1031711013245 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1031711013246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1031711013247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 1031711013248 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 1031711013249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711013250 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 1031711013251 dimerization interface [polypeptide binding]; other site 1031711013252 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 1031711013253 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711013254 Predicted integral membrane protein [Function unknown]; Region: COG5572 1031711013255 hypothetical protein; Provisional; Region: PRK05409 1031711013256 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 1031711013257 Predicted membrane protein [Function unknown]; Region: COG2259 1031711013258 BON domain; Region: BON; pfam04972 1031711013259 Outer membrane efflux protein; Region: OEP; pfam02321 1031711013260 Outer membrane efflux protein; Region: OEP; pfam02321 1031711013261 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711013262 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711013263 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711013264 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1031711013265 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1031711013266 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711013267 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 1031711013268 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1031711013269 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1031711013270 putative molybdopterin cofactor binding site [chemical binding]; other site 1031711013271 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1031711013272 putative molybdopterin cofactor binding site; other site 1031711013273 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711013274 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1031711013275 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 1031711013276 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1031711013277 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 1031711013278 putative active site [active] 1031711013279 heme pocket [chemical binding]; other site 1031711013280 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1031711013281 potassium uptake protein; Region: kup; TIGR00794 1031711013282 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 1031711013283 DNA-binding site [nucleotide binding]; DNA binding site 1031711013284 RNA-binding motif; other site 1031711013285 Cold shock proteins [Transcription]; Region: CspC; COG1278 1031711013286 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1031711013287 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1031711013288 tetrameric interface [polypeptide binding]; other site 1031711013289 NAD binding site [chemical binding]; other site 1031711013290 catalytic residues [active] 1031711013291 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1031711013292 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 1031711013293 inhibitor-cofactor binding pocket; inhibition site 1031711013294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013295 catalytic residue [active] 1031711013296 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 1031711013297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711013298 DNA-binding site [nucleotide binding]; DNA binding site 1031711013299 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 1031711013300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013301 homodimer interface [polypeptide binding]; other site 1031711013302 catalytic residue [active] 1031711013303 acetoacetate decarboxylase; Provisional; Region: PRK02265 1031711013304 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 1031711013305 classical (c) SDRs; Region: SDR_c; cd05233 1031711013306 NAD(P) binding site [chemical binding]; other site 1031711013307 active site 1031711013308 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1031711013309 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1031711013310 nucleophile elbow; other site 1031711013311 Patatin phospholipase; Region: DUF3734; pfam12536 1031711013312 putative oxidoreductase; Provisional; Region: PRK11579 1031711013313 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1031711013314 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1031711013315 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1031711013316 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711013317 N-terminal plug; other site 1031711013318 ligand-binding site [chemical binding]; other site 1031711013319 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1031711013320 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1031711013321 putative substrate binding site [chemical binding]; other site 1031711013322 putative ATP binding site [chemical binding]; other site 1031711013323 Pathogenicity factor; Region: AvrE; pfam11725 1031711013324 Pathogenicity factor; Region: AvrE; pfam11725 1031711013325 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1031711013326 HPr interaction site; other site 1031711013327 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1031711013328 active site 1031711013329 phosphorylation site [posttranslational modification] 1031711013330 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1031711013331 dimerization domain swap beta strand [polypeptide binding]; other site 1031711013332 regulatory protein interface [polypeptide binding]; other site 1031711013333 active site 1031711013334 regulatory phosphorylation site [posttranslational modification]; other site 1031711013335 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1031711013336 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1031711013337 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1031711013338 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1031711013339 Maltoporin (phage lambda and maltose receptor) [Carbohydrate transport and metabolism]; Region: LamB; COG4580 1031711013340 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1031711013341 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1031711013342 substrate binding [chemical binding]; other site 1031711013343 active site 1031711013344 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1031711013345 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1031711013346 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1031711013347 active site turn [active] 1031711013348 phosphorylation site [posttranslational modification] 1031711013349 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1031711013350 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711013351 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711013352 DNA binding site [nucleotide binding] 1031711013353 domain linker motif; other site 1031711013354 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1031711013355 dimerization interface [polypeptide binding]; other site 1031711013356 ligand binding site [chemical binding]; other site 1031711013357 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1031711013358 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1031711013359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711013360 NAD(P) binding site [chemical binding]; other site 1031711013361 active site 1031711013362 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1031711013363 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1031711013364 DNA binding residues [nucleotide binding] 1031711013365 dimer interface [polypeptide binding]; other site 1031711013366 metal binding site [ion binding]; metal-binding site 1031711013367 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1031711013368 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1031711013369 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 1031711013370 DNA-binding interface [nucleotide binding]; DNA binding site 1031711013371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1031711013372 Integrase core domain; Region: rve; pfam00665 1031711013373 transposase/IS protein; Provisional; Region: PRK09183 1031711013374 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 1031711013375 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 1031711013376 Walker A motif; other site 1031711013377 ATP binding site [chemical binding]; other site 1031711013378 Walker B motif; other site 1031711013379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1031711013380 Zn2+ binding site [ion binding]; other site 1031711013381 Mg2+ binding site [ion binding]; other site 1031711013382 AAA domain; Region: AAA_33; pfam13671 1031711013383 RNA ligase; Region: RNA_ligase; pfam09414 1031711013384 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1031711013385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711013386 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1031711013387 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1031711013388 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1031711013389 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 1031711013390 dimer interface [polypeptide binding]; other site 1031711013391 active site 1031711013392 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1031711013393 catalytic residues [active] 1031711013394 substrate binding site [chemical binding]; other site 1031711013395 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1031711013396 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1031711013397 IucA / IucC family; Region: IucA_IucC; pfam04183 1031711013398 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1031711013399 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1031711013400 IucA / IucC family; Region: IucA_IucC; pfam04183 1031711013401 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1031711013402 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; cl17904 1031711013403 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1031711013404 IucA / IucC family; Region: IucA_IucC; pfam04183 1031711013405 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1031711013406 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1031711013407 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 1031711013408 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 1031711013409 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 1031711013410 dimer interface [polypeptide binding]; other site 1031711013411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013412 catalytic residue [active] 1031711013413 Secretin and TonB N terminus short domain; Region: STN; smart00965 1031711013414 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711013415 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711013416 N-terminal plug; other site 1031711013417 ligand-binding site [chemical binding]; other site 1031711013418 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1031711013419 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1031711013420 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 1031711013421 DNA binding residues [nucleotide binding] 1031711013422 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1031711013423 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1031711013424 N-terminal plug; other site 1031711013425 ligand-binding site [chemical binding]; other site 1031711013426 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711013427 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 1031711013428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1031711013429 putative substrate translocation pore; other site 1031711013430 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1031711013431 Predicted membrane protein [Function unknown]; Region: COG4291 1031711013432 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1031711013433 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1031711013434 acyl-CoA synthetase; Validated; Region: PRK05850 1031711013435 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1031711013436 acyl-activating enzyme (AAE) consensus motif; other site 1031711013437 active site 1031711013438 thioester reductase domain; Region: Thioester-redct; TIGR01746 1031711013439 Male sterility protein; Region: NAD_binding_4; pfam07993 1031711013440 NAD(P) binding site [chemical binding]; other site 1031711013441 active site 1031711013442 potential frameshift: common BLAST hit: gi|339328251|ref|YP_004687943.1| transposase 1031711013443 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1031711013444 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711013445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711013446 metal binding site [ion binding]; metal-binding site 1031711013447 active site 1031711013448 I-site; other site 1031711013449 TPR repeat; Region: TPR_11; pfam13414 1031711013450 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 1031711013451 TPR motif; other site 1031711013452 Cache domain; Region: Cache_1; pfam02743 1031711013453 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711013454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711013455 metal binding site [ion binding]; metal-binding site 1031711013456 active site 1031711013457 I-site; other site 1031711013458 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1031711013459 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1031711013460 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1031711013461 active site residue [active] 1031711013462 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1031711013463 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1031711013464 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1031711013465 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1031711013466 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 1031711013467 Walker A motif/ATP binding site; other site 1031711013468 Walker B motif; other site 1031711013469 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1031711013470 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1031711013471 Flagellar assembly protein FliH; Region: FliH; pfam02108 1031711013472 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1031711013473 FliG C-terminal domain; Region: FliG_C; pfam01706 1031711013474 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1031711013475 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1031711013476 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1031711013477 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1031711013478 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1031711013479 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1031711013480 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 1031711013481 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1031711013482 putative metal binding site; other site 1031711013483 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711013484 MarR family; Region: MarR; pfam01047 1031711013485 Flagellar protein FliT; Region: FliT; pfam05400 1031711013486 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 1031711013487 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1031711013488 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1031711013489 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1031711013490 flagellin; Provisional; Region: PRK12802 1031711013491 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1031711013492 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1031711013493 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711013494 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 1031711013495 active site 1031711013496 phosphorylation site [posttranslational modification] 1031711013497 intermolecular recognition site; other site 1031711013498 dimerization interface [polypeptide binding]; other site 1031711013499 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 1031711013500 DNA binding residues [nucleotide binding] 1031711013501 dimerization interface [polypeptide binding]; other site 1031711013502 PAS fold; Region: PAS_4; pfam08448 1031711013503 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 1031711013504 putative active site [active] 1031711013505 heme pocket [chemical binding]; other site 1031711013506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711013507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711013508 metal binding site [ion binding]; metal-binding site 1031711013509 active site 1031711013510 I-site; other site 1031711013511 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 1031711013512 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1031711013513 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1031711013514 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1031711013515 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1031711013516 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 1031711013517 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1031711013518 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1031711013519 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 1031711013520 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1031711013521 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1031711013522 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 1031711013523 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1031711013524 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1031711013525 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1031711013526 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1031711013527 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1031711013528 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1031711013529 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1031711013530 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1031711013531 Flagellar L-ring protein; Region: FlgH; pfam02107 1031711013532 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1031711013533 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1031711013534 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1031711013535 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 1031711013536 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1031711013537 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1031711013538 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1031711013539 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1031711013540 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1031711013541 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1031711013542 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1031711013543 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1031711013544 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1031711013545 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1031711013546 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1031711013547 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1031711013548 SAF-like; Region: SAF_2; pfam13144 1031711013549 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1031711013550 Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgM; COG2747 1031711013551 FlgN protein; Region: FlgN; pfam05130 1031711013552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711013553 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 1031711013554 active site 1031711013555 phosphorylation site [posttranslational modification] 1031711013556 intermolecular recognition site; other site 1031711013557 dimerization interface [polypeptide binding]; other site 1031711013558 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 1031711013559 DNA binding residues [nucleotide binding] 1031711013560 dimerization interface [polypeptide binding]; other site 1031711013561 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711013562 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711013563 trimer interface [polypeptide binding]; other site 1031711013564 eyelet of channel; other site 1031711013565 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1031711013566 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1031711013567 DNA-binding site [nucleotide binding]; DNA binding site 1031711013568 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1031711013569 H-NS histone family; Region: Histone_HNS; pfam00816 1031711013570 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1031711013571 PAS fold; Region: PAS_4; pfam08448 1031711013572 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 1031711013573 putative active site [active] 1031711013574 heme pocket [chemical binding]; other site 1031711013575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1031711013576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1031711013577 metal binding site [ion binding]; metal-binding site 1031711013578 active site 1031711013579 I-site; other site 1031711013580 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 1031711013581 Putative cyclase; Region: Cyclase; pfam04199 1031711013582 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1031711013583 Ligand binding site; other site 1031711013584 metal-binding site 1031711013585 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1031711013586 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1031711013587 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1031711013588 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1031711013589 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 1031711013590 catalytic loop [active] 1031711013591 iron binding site [ion binding]; other site 1031711013592 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1031711013593 2-isopropylmalate synthase; Validated; Region: PRK03739 1031711013594 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1031711013595 active site 1031711013596 catalytic residues [active] 1031711013597 metal binding site [ion binding]; metal-binding site 1031711013598 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1031711013599 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1031711013600 dimerization interface [polypeptide binding]; other site 1031711013601 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1031711013602 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1031711013603 DNA binding residues [nucleotide binding] 1031711013604 dimer interface [polypeptide binding]; other site 1031711013605 putative metal binding site [ion binding]; other site 1031711013606 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1031711013607 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1031711013608 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1031711013609 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 1031711013610 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1031711013611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1031711013612 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1031711013613 Walker A/P-loop; other site 1031711013614 ATP binding site [chemical binding]; other site 1031711013615 ABC transporter signature motif; other site 1031711013616 Walker B; other site 1031711013617 D-loop; other site 1031711013618 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 1031711013619 Ligand Binding Site [chemical binding]; other site 1031711013620 SnoaL-like domain; Region: SnoaL_2; pfam12680 1031711013621 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1031711013622 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 1031711013623 FMN binding site [chemical binding]; other site 1031711013624 substrate binding site [chemical binding]; other site 1031711013625 putative catalytic residue [active] 1031711013626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711013627 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 1031711013628 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 1031711013629 dimer interface [polypeptide binding]; other site 1031711013630 phosphorylation site [posttranslational modification] 1031711013631 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 1031711013632 Mg2+ binding site [ion binding]; other site 1031711013633 G-X-G motif; other site 1031711013634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711013635 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 1031711013636 active site 1031711013637 phosphorylation site [posttranslational modification] 1031711013638 intermolecular recognition site; other site 1031711013639 dimerization interface [polypeptide binding]; other site 1031711013640 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 1031711013641 DNA binding site [nucleotide binding] 1031711013642 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711013643 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1031711013644 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711013645 potential frameshift: common BLAST hit: gi|17548533|ref|NP_521873.1| multidrug efflux system transmembrane protein 1031711013646 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1031711013647 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1031711013648 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711013649 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 1031711013650 H+ Antiporter protein; Region: 2A0121; TIGR00900 1031711013651 putative substrate translocation pore; other site 1031711013652 Predicted transcriptional regulators [Transcription]; Region: COG1695 1031711013653 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1031711013654 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 1031711013655 LysR family transcriptional regulator; Provisional; Region: PRK14997 1031711013656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711013657 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 1031711013658 dimerization interface [polypeptide binding]; other site 1031711013659 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1031711013660 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 1031711013661 FMN binding site [chemical binding]; other site 1031711013662 substrate binding site [chemical binding]; other site 1031711013663 putative catalytic residue [active] 1031711013664 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1031711013665 CGNR zinc finger; Region: zf-CGNR; pfam11706 1031711013666 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1031711013667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711013668 NAD(P) binding site [chemical binding]; other site 1031711013669 active site 1031711013670 Tar ligand binding domain homologue; Region: TarH; pfam02203 1031711013671 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 1031711013672 dimerization interface [polypeptide binding]; other site 1031711013673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1031711013674 dimer interface [polypeptide binding]; other site 1031711013675 putative CheW interface [polypeptide binding]; other site 1031711013676 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1031711013677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711013678 Coenzyme A binding pocket [chemical binding]; other site 1031711013679 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1031711013680 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 1031711013681 active site 1031711013682 DNA binding site [nucleotide binding] 1031711013683 Int/Topo IB signature motif; other site 1031711013684 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711013685 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 1031711013686 DNA binding residues [nucleotide binding] 1031711013687 dimerization interface [polypeptide binding]; other site 1031711013688 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 1031711013689 thiamine phosphate binding site [chemical binding]; other site 1031711013690 active site 1031711013691 pyrophosphate binding site [ion binding]; other site 1031711013692 metabolite-proton symporter; Region: 2A0106; TIGR00883 1031711013693 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 1031711013694 putative substrate translocation pore; other site 1031711013695 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1031711013696 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1031711013697 putative active site [active] 1031711013698 metal binding site [ion binding]; metal-binding site 1031711013699 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1031711013700 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1031711013701 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 1031711013702 protein binding site [polypeptide binding]; other site 1031711013703 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 1031711013704 protein binding site [polypeptide binding]; other site 1031711013705 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 1031711013706 dimer interface [polypeptide binding]; other site 1031711013707 phosphorylation site [posttranslational modification] 1031711013708 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 1031711013709 ATP binding site [chemical binding]; other site 1031711013710 Mg2+ binding site [ion binding]; other site 1031711013711 G-X-G motif; other site 1031711013712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1031711013713 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 1031711013714 active site 1031711013715 phosphorylation site [posttranslational modification] 1031711013716 intermolecular recognition site; other site 1031711013717 dimerization interface [polypeptide binding]; other site 1031711013718 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 1031711013719 DNA binding site [nucleotide binding] 1031711013720 NolX protein; Region: NolX; pfam05819 1031711013721 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1031711013722 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1031711013723 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1031711013724 putative active site [active] 1031711013725 glucokinase; Provisional; Region: glk; PRK00292 1031711013726 glucokinase, proteobacterial type; Region: glk; TIGR00749 1031711013727 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1031711013728 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1031711013729 putative active site [active] 1031711013730 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1031711013731 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1031711013732 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1031711013733 phosphogluconate dehydratase; Validated; Region: PRK09054 1031711013734 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1031711013735 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 1031711013736 Ligand Binding Site [chemical binding]; other site 1031711013737 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 1031711013738 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1031711013739 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1031711013740 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1031711013741 Cytochrome c; Region: Cytochrom_C; cl11414 1031711013742 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1031711013743 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1031711013744 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1031711013745 Subunit I/III interface [polypeptide binding]; other site 1031711013746 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 1031711013747 Subunit I/III interface [polypeptide binding]; other site 1031711013748 Predicted small integral membrane protein [Function unknown]; Region: COG5605 1031711013749 NolX protein; Region: NolX; pfam05819 1031711013750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711013751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711013752 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 1031711013753 dimerization interface [polypeptide binding]; other site 1031711013754 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1031711013755 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 1031711013756 putative substrate translocation pore; other site 1031711013757 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1031711013758 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1031711013759 MlrC C-terminus; Region: MlrC_C; pfam07171 1031711013760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1031711013761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711013762 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 1031711013763 dimerization interface [polypeptide binding]; other site 1031711013764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1031711013765 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 1031711013766 substrate binding pocket [chemical binding]; other site 1031711013767 membrane-bound complex binding site; other site 1031711013768 hinge residues; other site 1031711013769 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 1031711013770 dimer interface [polypeptide binding]; other site 1031711013771 conserved gate region; other site 1031711013772 putative PBP binding loops; other site 1031711013773 ABC-ATPase subunit interface; other site 1031711013774 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 1031711013775 dimer interface [polypeptide binding]; other site 1031711013776 conserved gate region; other site 1031711013777 putative PBP binding loops; other site 1031711013778 ABC-ATPase subunit interface; other site 1031711013779 agmatinase; Region: agmatinase; TIGR01230 1031711013780 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 1031711013781 oligomer interface [polypeptide binding]; other site 1031711013782 active site 1031711013783 Mn binding site [ion binding]; other site 1031711013784 transcriptional regulator EpsA; Region: EpsA; TIGR03020 1031711013785 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 1031711013786 DNA binding residues [nucleotide binding] 1031711013787 dimerization interface [polypeptide binding]; other site 1031711013788 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1031711013789 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1031711013790 tetramer interface [polypeptide binding]; other site 1031711013791 heme binding pocket [chemical binding]; other site 1031711013792 hypothetical protein; Provisional; Region: PRK05939 1031711013793 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 1031711013794 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1031711013795 catalytic residue [active] 1031711013796 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1031711013797 aldehyde dehydrogenase family 7 member; Region: PLN02315 1031711013798 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1031711013799 tetrameric interface [polypeptide binding]; other site 1031711013800 NAD binding site [chemical binding]; other site 1031711013801 catalytic residues [active] 1031711013802 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1031711013803 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1031711013804 dimerization interface [polypeptide binding]; other site 1031711013805 ligand binding site [chemical binding]; other site 1031711013806 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1031711013807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1031711013808 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 1031711013809 dimerization interface [polypeptide binding]; other site 1031711013810 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1031711013811 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1031711013812 trimer interface [polypeptide binding]; other site 1031711013813 eyelet of channel; other site 1031711013814 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1031711013815 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 1031711013816 putative substrate translocation pore; other site 1031711013817 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1031711013818 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1031711013819 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1031711013820 E3 interaction surface; other site 1031711013821 lipoyl attachment site [posttranslational modification]; other site 1031711013822 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711013823 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1031711013824 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711013825 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 1031711013826 non-specific DNA binding site [nucleotide binding]; other site 1031711013827 salt bridge; other site 1031711013828 sequence-specific DNA binding site [nucleotide binding]; other site 1031711013829 Cupin domain; Region: Cupin_2; pfam07883 1031711013830 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 1031711013831 metabolite-proton symporter; Region: 2A0106; TIGR00883 1031711013832 putative substrate translocation pore; other site 1031711013833 amidase; Provisional; Region: PRK07486 1031711013834 Amidase; Region: Amidase; pfam01425 1031711013835 similar to truncated endoribonuclease L-PSP; RSPO_m01590 1031711013836 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1031711013837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711013838 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1031711013839 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1031711013840 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 1031711013841 active site 1031711013842 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1031711013843 active site 1031711013844 conformational flexibility of ligand binding pocket; other site 1031711013845 ADP-ribosylating toxin turn-turn motif; other site 1031711013846 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711013847 active site 1031711013848 metal binding site [ion binding]; metal-binding site 1031711013849 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1031711013850 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 1031711013851 succinic semialdehyde dehydrogenase; Region: PLN02278 1031711013852 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1031711013853 tetramerization interface [polypeptide binding]; other site 1031711013854 NAD(P) binding site [chemical binding]; other site 1031711013855 catalytic residues [active] 1031711013856 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1031711013857 tartrate dehydrogenase; Region: TTC; TIGR02089 1031711013858 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1031711013859 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 1031711013860 D-galactonate transporter; Region: 2A0114; TIGR00893 1031711013861 putative substrate translocation pore; other site 1031711013862 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1031711013863 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1031711013864 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1031711013865 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711013866 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711013867 DNA binding site [nucleotide binding] 1031711013868 domain linker motif; other site 1031711013869 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1031711013870 putative dimerization interface [polypeptide binding]; other site 1031711013871 putative ligand binding site [chemical binding]; other site 1031711013872 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1031711013873 ParB-like nuclease domain; Region: ParBc; pfam02195 1031711013874 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1031711013875 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 1031711013876 Active Sites [active] 1031711013877 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1031711013878 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1031711013879 Haemagglutinin; Region: HIM; pfam05662 1031711013880 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1031711013881 trimer interface [polypeptide binding]; other site 1031711013882 YadA-like C-terminal region; Region: YadA; pfam03895 1031711013883 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1031711013884 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 1031711013885 active site 1031711013886 phosphorylation site [posttranslational modification] 1031711013887 intermolecular recognition site; other site 1031711013888 dimerization interface [polypeptide binding]; other site 1031711013889 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 1031711013890 DNA binding residues [nucleotide binding] 1031711013891 dimerization interface [polypeptide binding]; other site 1031711013892 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1031711013893 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1031711013894 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 1031711013895 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1031711013896 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 1031711013897 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711013898 active site 1031711013899 HIGH motif; other site 1031711013900 nucleotide binding site [chemical binding]; other site 1031711013901 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1031711013902 active site 1031711013903 KMSKS motif; other site 1031711013904 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1031711013905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1031711013906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1031711013907 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1031711013908 Coenzyme A binding pocket [chemical binding]; other site 1031711013909 similar to truncated putative AvrBs3 family type III effector protein; RSPO_m01618 1031711013910 putative transposase OrfB; Reviewed; Region: PHA02517 1031711013911 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1031711013912 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 1031711013913 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 1031711013914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1031711013915 homodimer interface [polypeptide binding]; other site 1031711013916 catalytic residue [active] 1031711013917 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1031711013918 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1031711013919 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 1031711013920 non-specific DNA binding site [nucleotide binding]; other site 1031711013921 salt bridge; other site 1031711013922 sequence-specific DNA binding site [nucleotide binding]; other site 1031711013923 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 1031711013924 cyanate hydratase; Validated; Region: PRK02866 1031711013925 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1031711013926 oligomer interface [polypeptide binding]; other site 1031711013927 active site 1031711013928 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1031711013929 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1031711013930 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1031711013931 putative ligand binding site [chemical binding]; other site 1031711013932 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1031711013933 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1031711013934 Walker A/P-loop; other site 1031711013935 ATP binding site [chemical binding]; other site 1031711013936 Q-loop/lid; other site 1031711013937 ABC transporter signature motif; other site 1031711013938 Walker B; other site 1031711013939 D-loop; other site 1031711013940 H-loop/switch region; other site 1031711013941 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1031711013942 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1031711013943 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1031711013944 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1031711013945 TM-ABC transporter signature motif; other site 1031711013946 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1031711013947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1031711013948 NAD(P) binding site [chemical binding]; other site 1031711013949 active site 1031711013950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1031711013951 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1031711013952 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1031711013953 DNA binding site [nucleotide binding] 1031711013954 domain linker motif; other site 1031711013955 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 1031711013956 putative dimerization interface [polypeptide binding]; other site 1031711013957 putative ligand binding site [chemical binding]; other site 1031711013958 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1031711013959 EamA-like transporter family; Region: EamA; pfam00892 1031711013960 EamA-like transporter family; Region: EamA; pfam00892 1031711013961 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1031711013962 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711013963 short chain dehydrogenase; Validated; Region: PRK08264 1031711013964 classical (c) SDR, subgroup 7; Region: SDR_c7; cd05354 1031711013965 putative NAD(P) binding site [chemical binding]; other site 1031711013966 active site 1031711013967 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1031711013968 MarR family; Region: MarR_2; cl17246 1031711013969 Outer membrane efflux protein; Region: OEP; pfam02321 1031711013970 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1031711013971 HlyD family secretion protein; Region: HlyD_3; pfam13437 1031711013972 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1031711013973 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1031711013974 Uncharacterized conserved protein [Function unknown]; Region: COG5569 1031711013975 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1031711013976 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1031711013977 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1031711013978 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1031711013979 MarR family; Region: MarR; pfam01047 1031711013980 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1031711013981 active site 1 [active] 1031711013982 dimer interface [polypeptide binding]; other site 1031711013983 hexamer interface [polypeptide binding]; other site 1031711013984 active site 2 [active] 1031711013985 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1031711013986 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1031711013987 conserved cys residue [active] 1031711013988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711013989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1031711013990 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1031711013991 conserved cys residue [active] 1031711013992 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1031711013993 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 1031711013994 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1031711013995 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 1031711013996 TPR motif; other site 1031711013997 binding surface 1031711013998 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1031711013999 Putative zinc-finger; Region: zf-HC2; pfam13490 1031711014000 RNA polymerase sigma factor; Provisional; Region: PRK12533 1031711014001 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1031711014002 DNA binding residues [nucleotide binding] 1031711014003 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1031711014004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1031711014005 active site 1031711014006 metal binding site [ion binding]; metal-binding site 1031711014007 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1031711014008 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1031711014009 transcriptional regulator MalT; Provisional; Region: PRK04841 1031711014010 potential frameshift: common BLAST hit: gi|300694712|ref|YP_003750685.1| ferritin 1031711014011 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1031711014012 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1031711014013 G1 box; other site 1031711014014 putative GEF interaction site [polypeptide binding]; other site 1031711014015 GTP/Mg2+ binding site [chemical binding]; other site 1031711014016 Switch I region; other site 1031711014017 G2 box; other site 1031711014018 G3 box; other site 1031711014019 Switch II region; other site 1031711014020 G4 box; other site 1031711014021 G5 box; other site 1031711014022 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 1031711014023 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1031711014024 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1031711014025 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 1031711014026 active site 1031711014027 phosphorylation site [posttranslational modification] 1031711014028 intermolecular recognition site; other site 1031711014029 dimerization interface [polypeptide binding]; other site 1031711014030 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 1031711014031 Walker A motif; other site 1031711014032 ATP binding site [chemical binding]; other site 1031711014033 Walker B motif; other site 1031711014034 arginine finger; other site 1031711014035 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711014036 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 1031711014037 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1031711014038 Walker A motif; other site 1031711014039 ATP binding site [chemical binding]; other site 1031711014040 Walker B motif; other site 1031711014041 arginine finger; other site 1031711014042 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1031711014043 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 1031711014044 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1031711014045 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1031711014046 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1031711014047 Predicted deacetylase [General function prediction only]; Region: COG3233 1031711014048 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1031711014049 putative active site [active] 1031711014050 putative Zn binding site [ion binding]; other site 1031711014051 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 1031711014052 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1031711014053 putative active site [active] 1031711014054 heme pocket [chemical binding]; other site 1031711014055 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 1031711014056 putative active site [active] 1031711014057 heme pocket [chemical binding]; other site 1031711014058 PAS fold; Region: PAS_4; pfam08448 1031711014059 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 1031711014060 putative active site [active] 1031711014061 heme pocket [chemical binding]; other site 1031711014062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1031711014063 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 1031711014064 dimer interface [polypeptide binding]; other site 1031711014065 phosphorylation site [posttranslational modification] 1031711014066 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 1031711014067 ATP binding site [chemical binding]; other site 1031711014068 Mg2+ binding site [ion binding]; other site 1031711014069 G-X-G motif; other site 1031711014070 Response regulator receiver domain; Region: Response_reg; pfam00072 1031711014071 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 1031711014072 active site 1031711014073 phosphorylation site [posttranslational modification] 1031711014074 intermolecular recognition site; other site 1031711014075 dimerization interface [polypeptide binding]; other site 1031711014076 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252